gebhart/patrepeval huggingface dataset:
The cytoplasm of mouse germinal vesicle stage oocytes can enhance somatic cell nuclear reprogramming (2008)

In mammalian cloning, evidence suggests that genomic reprogramming factors are located in the nucleus rather than the cytoplasm of oocytes or zygotes. However, little is known about the mechanisms of reprogramming, and new methods using nuclear factors have not succeeded in producing cloned mice from differentiated somatic cell nuclei. We aimed to determine whether there are functional reprogramming factors present in the cytoplasm of germinal vesicle stage (GV) oocytes. We found that the GV oocyte cytoplasm could remodel somatic cell nuclei, completely demethylate histone H3 at lysine 9 and partially deacetylate histone H3 at lysines 9 and 14. Moreover, cytoplasmic lysates of GV oocytes promoted somatic cell reprogramming and cloned embryo development, when assessed by measuring histone H3-K9 hypomethylation, Oct4 and Cdx2 expression in blastocysts, and the production of cloned offspring. Thus, genomic reprogramming factors are present in the cytoplasm of the GV oocyte and could facilitate cloning technology. This finding is also useful for research on the mechanisms involved in histone deacetylation and demethylation, even though histone methylation is thought to be epigenetically stable.
Use of Room Temperature Ionic Liquids in Gas Sensor Design (2004)

The attainable steady-state limiting currents and time responses of membrane-covered and membrane-independent gas sensors incorporating different electrode and electrolyte materials have been compared. A new design comprising a membrane-free microelectrode modified with a thin layer of a room temperature ionic liquid is considered. While the use of ionic liquid as electrolyte eliminates the need for a membrane and added supporting electrolyte, the slower diffusion of analyte within the more viscous medium results in slower time responses. Such sensors do, however, have potential application in more extreme operating conditions, such as high temperature and pressure, where traditional solvents would volatise.
First Intracellular Loop of the Human Cholecystokinin-A Receptor Is Essential for Cyclic AMP Signaling in Transfected HEK-293 Cells (1997)

Cholecystokinin (CCK)-A and CCK-B receptors are highly homologous members of the seven transmembrane domain G-protein-coupled receptor superfamily. Genes of both receptors contain five exons and share a similar exon-intron organization. To determine the structural basis of CCK-A receptor (CCK-AR) functionally coupled to Gs, a series of chimeric mutants were constructed by replacing exons of human CCK-B receptor (CCK-BR), from the second to the fifth (last) exon, with human CCK-AR counterparts. Binding and signal transduction properties of wild-type and chimeric receptors were examined in stably transfected HEK-293 cells. Chimeric receptors that maintained high affinity binding to CCK exhibited dose-dependent increases in intracellular calcium mobilization similar to both wild-type receptors. However, only the wild-type CCK-AR and chimeric mutants containing the second exon of CCK-AR were able to mediate significantly greater increases in intracellular cAMP content and adenylyl cyclase activity compared with wild-type CCK-BR. A CCK-BR mutant was further constructed by replacing five amino acids, Gly-Leu-Ser-Arg-(Arg)-Leu, in the first intracellular loop with the corresponding five CCK-AR specific amino acids, Ile-Arg-Asn-Lys-(Arg)-Met. The resultant receptor maintained high affinity binding to both CCK and gastrin and dose-dependent calcium responses similar to wild-type CCK-BR. However, this first intracellular loop mutant also gained positive cAMP responses to both sulfated CCK-8 and gastrin-17 with EC50 values of 8.5 +/- 1 nM and 23 +/- 7 nM, respectively. These data suggest that the first intracellular loop of CCK-AR is essential for coupling to Gs and activation of adenylyl cyclase signal transduction cascade.
Nuclear Factor of Activated T Cells Regulates Transcription of the Surfactant Protein D Gene (Sftpd) via Direct Interaction with Thyroid Transcription Factor-1 in Lung Epithelial Cells (2004)

Surfactant protein D (SP-D) plays critical roles in host defense, surfactant homeostasis, and pulmonary immunomodulation. Here, we identify a role of nuclear factor of activated T cells (NFATs) in regulation of murine SP-D gene (Sftpd) transcription. An NFAT-dependent enhancer modulated by NFATs or calcineurin and sensitive to cyclosporin was identified in the Sftpd promoter. Ionomycin and phorbol 12-myristate 13-acetate further increased the activity of this enhancer, whereas VIVIT, a potent NFAT inhibitor peptide, selectively interfered with the calcineurin-NFAT interaction and abolished enhancer function. Gel supershift and DNase I protection assays identified DNA elements that bind NFAT in the Sftpd promoter. Calcineurin and NFATc3 proteins were detected in the embryonic and adult mouse lung epithelium, and the mRNA expression profiles of the NFATs were similar in immortalized mouse lung epithelial cells and alveolar epithelial type II cells. NFATc3 and TTF-1 activated the Sftpd promoter, synergized transcription, co-immunoprecipitated from mouse lung epithelial cells, and physically interacted in vitro. Components of the calcineurin/NFAT pathway were identified in respiratory epithelial cells of the lung that potentially augment rapid assembly of a multiprotein transcription complex on Sftpd promoter inducing SP-D expression.
Detection of Sub-Design Rule Physical Defects Using E-Beam Inspection (2013)

E-beam inspection provides an alternative approach to brightfield inspection for detection of otherwise difficult to detect physical defects. Advantages of E-beam inspection include superior resolution, the ability to classify defects using patch images, automatic filtering of prior level defects, and beam conditions for material contrast. For extremely small defects, which are becoming more common with each technology, brightfield inspection can fall short because of resolution limits. Either the defects are too small to even be detected or the defects are hidden among nuisance or other types of defects and cannot be binned out without SEM review. We present four examples of challenging defects that could not effectively be monitored with brightfield inspection and, therefore, were monitored with E-beam inspection. Throughput is a key limitation of E-beam inspection. Therefore, brightfield inspection should always be used for defection of physical defects when effective. To maximize the chance of success with brightfield inspection, E-beam inspection data may be used as a gold standard for development of the best optical inspection conditions. A methodology to do this is described and illustrated.
On reconstructing a string from its substring compositions (2010)

Motivated by protein sequencing, we consider the problem of reconstructing a string from the compositions of its substrings. We provide several results, including the following. General classes of strings that cannot be distinguished from their substring compositions. An almost complete characterization of the lengths for which reconstruction is possible. Bounds on the number of strings with the same substring compositions in terms of the number of divisors of the string length plus one. A relation to the turnpike problem and a bivariate polynomial formulation of string reconstruction.
Human Papillomavirus Infection as a Risk Factor for Squamous-Cell Carcinoma of the Head and Neck (2001)

HPV-16 infection may be a risk factor for squamous-cell carcinoma of the head and neck.
Assessment of Candidate Molten Salt Coolants for the NGNP/NHI Heat-Transfer Loop (2006)

This report provides an assessment of candidate salts proposed as the coolant for the loop that shuttles heat from the Next Generation Nuclear Plant (NGNP) to the Nuclear Hydrogen Initiative (NHI) hydrogen-production plant. The physical properties most relevant for coolant service were reviewed, and key chemical factors that influence material compatibility were also analyzed for the purpose of screening candidate salts. A preliminary assessment of the cost of the raw materials required to produce the coolant is also presented. Salts that are suitable for use as the primary coolant in a high-temperature nuclear reactor were previously analyzed. Some of the fluoride salts identified in the previous study are also appropriate for consideration as the secondary coolant in a heat-transfer loop; therefore, results from the previous report are used in this document. However, alternative coolant salts (i.e., chlorides and fluoroborates) that were not considered in the previous report should be considered for service in the heat-transfer loop. These alternative coolants are considered in this report.
Structures of the O-Glycans on P-selectin Glycoprotein Ligand-1 from HL-60 Cells (1996)

P-selectin glycoprotein ligand-1 (PSGL-1) is a disulfide-bonded homodimeric mucin-like glycoprotein on leukocytes that interacts with both P- and E-selectin. In this report we describe the structures of the Ser/Thr-linked O-glycans of PSGL-1 synthesized by HL-60 cells metabolically radiolabeled with 3H-sugar precursors. In control studies, the O-glycans on CD43 (leukosialin), a mucin-like glycoprotein also expressed by HL-60 cells, were analyzed and compared to those of PSGL-1. O-Glycans were released from Ser/Thr residues by mild base/borohydride treatment of purified glycoproteins, and glycan structures were determined by a combination of techniques. In contrast to expectations, PSGL-1 is not heavily fucosylated; a majority of the O-glycans are disialylated or neutral forms of the core-2 tetrasaccharide Galbeta1-->4GlcNAcbeta1-->6(Galbeta1-->3)GalNAcOH++ +. A minority of the O-glycans are alpha-1,3-fucosylated that occur as two major species containing the sialyl Lewis x antigen; one species is a disialylated, monofucosylated glycan, and the other is a monosialylated, trifucosylated glycan having a polylactosamine backbone. CD43 lacks the fucosylated glycans found on PSGL-1 and is enriched for the nonfucosylated, disialylated core-2 hexasaccharide. These results demonstrate that PSGL-1 contains unique fucosylated O-glycans that are predicted to be critical for high affinity interactions between PSGL-1 and selectins.
Construction of novel subtilisin E with high specificity, activity and productivity through multiple amino acid substitutions (1997)

Through three cumulative amino acid substitutions, we constructed novel mutant subtilisins E of Bacillus subtilis, all with high specificity, activity and productivity. The substitution of conserved Gly127, constituting P1 substrate-binding pocket, with Ala and Val showed a marked preference for the small P1 substrate. Leu was then substituted for Ile31 next to the catalytic Asp32 to enhance the catalytic activity. Both double mutants (I31L/G127A and I31L/G127V) showed a 3-5-fold increase in catalytic efficiency due to a large kcat, without any change in the specificity of the mutants at position 127. Molecular modeling suggests that large P1 residues were unable to access the pocket because of steric hindrance. A third mutation was introduced by replacing Tyr(-1) with Ala in the propeptide essential for autoprocessing to active mature subtilisin in vivo. A prominent 7-20-fold increase in active enzyme production occurred in the triple mutants (Y-1A/I31L/G127A and Y-1A/I31L/G127V).
Interleukin-11 enhances human megakaryocytopoiesis in vitro (1992)

We investigated the effect of recombinant human interleukin-11 (rhIL-11) on human megakaryocytopoiesis. Nonadherent and T-cell-depleted human bone marrow (BM) mononuclear cells were cultured in a serum-free agar culture system. rhIL-11 alone did not stimulate the growth of human megakaryocyte colonies. However, when rhIL-11 was combined with optimal or suboptimal doses of rhIL-3, the number and size of the megakaryocyte colonies increased. The same results were obtained when highly purified BM CD34-positive cells were used as target cells. Next, we investigated the effect of rhIL-11 on the ploidy of megakaryocytes. The ploidy distribution of individual cells in megakaryocyte colonies obtained by rhIL-11 in combination with rhIL-3 was significantly shifted towards higher values. Furthermore, when highly purified CD41-positive BM cells were cultured in the presence of rhIL-11, the ploidy distribution was shifted towards higher values. This effect was not suppressed by anti-IL-6 antibody. These results suggest that rhIL-11 acts directly as a megakaryocyte potentiator and may play a role in regulating human megakaryocytopoiesis.
Erbstatin blocks platelet activating factor‐induced protein‐tyrosine phosphorylation, polyphosphoinositide hydrolysis, protein kinase C activation, serotonin secretion and aggregation of rabbit platelets (1990)

The role of protein-tyrosine phosphorylation in the signal transduction of platelet activating factor (PAF) was investigated in rabbit platelets with a range of synthetic compounds that inhibit protein-tyrosine kinases. In particular, erbstatin (IC50 approximately 20 micrograms/ml) abrogated a wide range of platelet responses to PAF, including tyrosine phosphorylation of cellular proteins, polyphosphoinositide turnover, activation of membranous protein kinase C, platelet aggregation, and serotonin secretion. With about a third of the potency of erbstatin, compound RG50864 also inhibited many of these responses, whereas at 100 micrograms/ml, genistein, 670C88 and ST271 were without effect. Finally, the ability of thrombin to cause platelet aggregation and serotonin secretion was also compromised by erbstatin.
Delivery of Adeno-Associated Virus Gene Therapy by Intravascular Limb Infusion Methods (2015)

Recombinant adeno-associated virus (rAAV) can be delivered to the skeletal muscle of the limb (pelvic or thoracic) by means of regional intravascular delivery. This review summarizes the evolution of this technique to deliver rAAV either via the arterial blood supply or via the peripheral venous circulation. The focus of this review is on applications in large animal models, including preclinical studies. Based on this overview of past research, we aim to inform the design of preclinical and clinical studies.
Comorbidities of migraine (2010)

Migraine is a common neurological disorder and can be severely disabling during attacks. The highest prevalence occurs between the ages of 25 and 55 years, potentially the most productive period of life. Migraine leads to a burden not only for the individual, but also for the family and society in general. Prior studies have found that migraine occurs together with other illnesses at a greater coincidental rate than is seen in the general population. These occurrences are called "comorbidities," which means that these disorders are interrelated with migraine. To delineate the comorbidities of migraine is important, because it can help improve treatment strategies and the understanding of the possible pathophysiology of migraine. The comorbid illnesses in patients with migraine include stroke, sub-clinical vascular brain lesions, coronary heart disease, hypertension, patent foramen ovale, psychiatric diseases (depression, anxiety, bipolar disorder, panic disorder, and suicide), restless legs syndrome, epilepsy and asthma. In this paper, we review the existing epidemiological and hospital-based studies, and illustrate the connections between these illnesses and migraine.
Enzymatic Resolution of Bicyclic 1-Heteroarylamines Using Candida antarctica Lipase B (2003)

Candida antarctica lipase B has been used to kinetically resolve a structurally diverse series of bicyclic 1-heteroaryl primary amines by enantioselective acetylation. High yields of either enantiomer could be obtained with excellent enantioselectivity (90-99% ee), while the undesired enantiomer could, in some cases, be recycled by thermal racemization. The absolute stereochemistry of the products was confirmed by an X-ray crystal structure.
Improved Signal-to-Noise Ratio Estimation for Speech Enhancement (2006)

This paper addresses the problem of single-microphone speech enhancement in noisy environments. State-of-the-art short-time noise reduction techniques are most often expressed as a spectral gain depending on the signal-to-noise ratio (SNR). The well-known decision-directed (DD) approach drastically limits the level of musical noise, but the estimated a priori SNR is biased since it depends on the speech spectrum estimation in the previous frame. Therefore, the gain function matches the previous frame rather than the current one which degrades the noise reduction performance. The consequence of this bias is an annoying reverberation effect. We propose a method called two-step noise reduction (TSNR) technique which solves this problem while maintaining the benefits of the decision-directed approach. The estimation of the a priori SNR is refined by a second step to remove the bias of the DD approach, thus removing the reverberation effect. However, classic short-time noise reduction techniques, including TSNR, introduce harmonic distortion in enhanced speech because of the unreliability of estimators for small signal-to-noise ratios. This is mainly due to the difficult task of noise power spectrum density (PSD) estimation in single-microphone schemes. To overcome this problem, we propose a method called harmonic regeneration noise reduction (HRNR). A nonlinearity is used to regenerate the degraded harmonics of the distorted signal in an efficient way. The resulting artificial signal is produced in order to refine the a priori SNR used to compute a spectral gain able to preserve the speech harmonics. These methods are analyzed and objective and formal subjective test results between HRNR and TSNR techniques are provided. A significant improvement is brought by HRNR compared to TSNR thanks to the preservation of harmonics
An overview on synthesis, properties and applications of poly(butylene-adipate-co-terephthalate)–PBAT (2020)

A significantly growing interest is to design new biodegradable polymers in order to solve fossil resources and environmental pollution problems associated with conventional plastics. A kind of new biodegradable polymers, aliphatic–aromatic co-polyesters have been researched widely and developed rapidly in recent years, since that can combine excellent biodegradability provided from aliphatic polyesters and good properties from aromatic polyesters. Out of which, poly (butylene-adipate-co-terephthalate) (PBAT) shows the most importance. PBAT has been commercialized by polycondensation reaction of butanediol (BDO), adipic acid (AA) and terephthalic acid (PTA) using general polyester manufacturing technology. And it has been considered to have desirable properties and competitive costs to be applied in many fields. Therefore, this review aims to present an overview on the synthesis, properties and applications of PBAT. Keywords: Biodegradation, Polyester, PBAT, Synthesis, Property, Application
Recent Advances of Dendritic Cells (DCs)-Based Immunotherapy for Malignant Gliomas (2009)

Immunotherapy is a new light of hope for the treatment of malignant gliomas. The brain is no longer believed to be an immunologically privileged organ. The major advantage of immunotherapy is the tumor-specific cytotoxic effect on the tumor cells with minimal side effects. Autologous dendritic cells (DCs)-based immunotherapy is a promising and feasible method. DCs are the most potent antigen-presenting cells (APCs). DCs prime T lymphocytes by epitopic major histocompatibility (MHC) class I and II for CD8(+) cytotoxic T lymphocytes (CTLs) and CD4(+) T helper cells, respectively. From the tissue specimen examination after DCs-based immunotherapy, CD8(+) CTLs have replaced T regulatory cells (Tregs) as the major dominant tissue infiltrating lymphocytes (TILs). CD8(+) CTLs play a key role in the tumor response, which may also be effective against cancer stem cells. DCs themselves also produce many cytokines including interferon-gamma and interleukin (IL-2) to kill the tumor cells. From the preliminary better outcomes in the literature for malignant gliomas, DC-based immunotherapy may improve tumor response by increasing the survival rate and time. It is recommended that DC-based immunotherapy is applied as soon as possible with conjunctive radiotherapy and chemotherapy. Malignant gliomas have heterogeneity of tissue-associated antigens (TAAs). To find universal common antigens through different kinds of tumor culture may be the essential issue for tumor vaccine development in the future.
A Study on Fashion Illustration as a Visual Communication - Based on Metaphor and Metonymy - (2003)

The purpose of this study is to analyze the expression and possibility of metaphor and metonymy as a visual communication means in the history of fashion illustration. The findings of this study were as follows : The 20th century ago, fashion illustration has shown a metaphor and metonymy in caricature and image drawing. From the 1900 to 1929, parody, etc. From the 1930 to 1959, it has shown a metaphor in figure's substitution by surrealism and metonymy in sim- plification. From the 1960 to 1979, it has shown a metaphor in illusion and collage. Since 1980, it has shown a metaphor in figure's transformation, distortion, combination of different kinds by postmodernism
Modulation of cellular S1P levels with a novel, potent and specific inhibitor of sphingosine kinase-1 (2012)

SphK (sphingosine kinase) is the major source of the bioactive lipid and GPCR (G-protein-coupled receptor) agonist S1P (sphingosine 1-phosphate). S1P promotes cell growth, survival and migration, and is a key regulator of lymphocyte trafficking. Inhibition of S1P signalling has been proposed as a strategy for treatment of inflammatory diseases and cancer. In the present paper we describe the discovery and characterization of PF-543, a novel cell-permeant inhibitor of SphK1. PF-543 inhibits SphK1 with a K(i) of 3.6 nM, is sphingosine-competitive and is more than 100-fold selective for SphK1 over the SphK2 isoform. In 1483 head and neck carcinoma cells, which are characterized by high levels of SphK1 expression and an unusually high rate of S1P production, PF-543 decreased the level of endogenous S1P 10-fold with a proportional increase in the level of sphingosine. In contrast with past reports that show that the growth of many cancer cell lines is SphK1-dependent, specific inhibition of SphK1 had no effect on the proliferation and survival of 1483 cells, despite a dramatic change in the cellular S1P/sphingosine ratio. PF-543 was effective as a potent inhibitor of S1P formation in whole blood, indicating that the SphK1 isoform of sphingosine kinase is the major source of S1P in human blood. PF-543 is the most potent inhibitor of SphK1 described to date and it will be useful for dissecting specific roles of SphK1-driven S1P signalling.