gebhart/patrepeval huggingface dataset:
Point mutation in the fibroblast growth factor receptor eliminates phosphatidylinositol hydrolysis without affecting neuronal differentiation of PC12 cells. (1994)

Fibroblast growth factors (FGF) stimulate growth arrest and differentiation in rat pheochromocytoma PC12 cells. We examined the role of phosphatidylinositol (PI) hydrolysis in FGF-induced differentiation of PC12 cells by exploring the biological and biochemical activity of a mutant FGF receptor 1 (flg) defective in stimulation of PI hydrolysis. We show that point mutation at Tyr-766 (Y766F) of the FGF receptor prevents tyrosine phosphorylation of phospholipase C gamma and eliminates acidic FGF (aFGF)-induced stimulation of PI hydrolysis in PC12 cells. Treatment of PC12 cells expressing either wild-type or the Y766F mutant with aFGF led to tyrosine phosphorylation of Shc, the association of Shc with GRB2, a shift in the electrophoretic mobility of the Ras guanine nucleotide-releasing factor, Sos (son of sevenless), and enhancement in mitogen-activated protein kinase phosphorylation. Moreover, stimulation with aFGF led to a typical neurite outgrowth of PC12 cells expressing either wild-type or the Y766F FGF receptor mutant. These experiments indicate that PI hydrolysis is not essential for FGF-induced neuronal differentiation of PC12 cells. Moreover, the aFGF-induced Ras signaling pathway, which is essential for PC12 cell differentiation, is not affected by elimination of PI hydrolysis.
Cytogenetic characterization of the Madin-Darby bovine kidney cell line (1992)

The permanent bovine cell line, Madin-Darby bovine kidney, was cytogenetically analyzed. Chromosomal staining indicated 52 metaphase chromosomes with variations from 49 to 54. The isochromosomes 5, 12, and 13, and centric fusions between chromosomes 1 and 26, 9 and 11, 9 and 24, 17 and 25, 18 and 23, 20 and 24, and 24 and 27 were considered marker chromosomes.
Potential retroviral RNAs in Creutzfeldt-Jakob disease (1990)

The molecular nature of the related infectious agents that cause Creutzfeldt-Jakob disease (CJD) and scrapie is poorly understood, and an agent-specific nucleic acid genome has not yet been identified. Several biological manifestations of these agents resemble those seen in retrovirus-induced diseases. We therefore attempted to identify an agent-specific retrovirus-like RNA transcript in CJD infectious fractions. A series of synthetic oligonucleotides complementary to known mammalian retroviral primer binding sites were used in a primer extension assay. Substrate nucleic acids isolated from partially purified hamster brain CJD infectious fractions and from parallel normal brain fractions were compared with total starting brain RNA. This sensitive exogenous strong-stop reaction revealed that CJD infectious fractions contained a series of potential retroviral RNAs including apparent transcripts of endogenous hamster IAP genes. Most transcripts selectively recovered in the fractions were substantially protected from micrococcal nuclease digestion, and at least one substrate RNA, consistent with an intracisternal A particle, was packaged in a form that had the same buoyant density as CJD infectivity. Although a completely CJD-specific transcript was not identified, the copurification of potential retroviral transcripts with CJD infectivity suggests that models of disease involving retrovirus-like nucleic acid elements deserve further consideration.
A new design for the genome sequence data base (1995)

Five years have passed since the Genome Sequence DataBase (GSDB, but at that time GenBank) implemented a first version of the Electronic Data Publishing (EDP) paradigm. The database operation is again being completely redesigned, with the overall philosophy of continually measuring and improving the services provided. The three major goals of the redesign are to: (1) bring the implementation of EDP to maturity by supporting on-line editing by the community; (2) facilitate third-party annotation in order to stay up to date with the on-going discovery process involved in fully characterizing existing sequences; and (3) modularize genome data services by designing GSDB to rely on other public databases for data not central to the DNA sequence database. This article describes the design requirements and the new schema.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Normalizing connections and the energy-momentum method (1990)

The block diagonalization method for determining the stability of relative equilibria is discussed from\nthe point of view of connections. We construct connections whose horizontal and vertical decompositions simultaneosly put the second variation of the augmented Hamiltonian and the symplectic structure into normal form. The cotangent bundle reduction theorem provides the setting in which the results are obtained.
Influence of mesenchymal stem cell-derived extracellular vesicles in vitro and their role in ageing (2020)

MSC-derived extracellular vesicles affected the behaviour of MSC cultures, based on their composition, which could be modified in vitro. These experiments represented the basis for the development of new therapies against ageing-associated diseases using MSC-derived extracellular vesicles.
Variants in <i>MARC1</i> and <i>HSD17B13</i> reduce severity of NAFLD in children, perturb phospholipid metabolism, and suppress fibrotic pathways (2020)

Abstract Background & aims Genome-wide association studies in adults have identified variants in HSD17B13 and MARC1 as protective against NAFLD. It is not known if they are similarly protective in children and, more generally, whether the peri-portal inflammation of pediatric NAFLD and lobular inflammation seen in adults share common genetic influences. Therefore, we aimed to: establish if these variants are associated with NAFLD in children, and to investigate the function of these variants in hepatic metabolism using metabolomics. Methods 960 children (590 with NAFLD, 394 with liver histology) were genotyped for rs72613567T>TA in HSD17B13 , rs2642438G>A in MARC1 . Genotype-histology associations were tested using ordinal regression. Untargeted hepatic proteomics and plasma lipidomics were performed in a subset of samples. In silico tools were used to model the effect of rs2642438G>A (p.Ala165Thr) on MARC1 . Results rs72613567T>TA in HSD17B13 was associated with lower odds of NAFLD diagnosis (OR 0.7 (95%CI 0.6-0.9) and lower grade of portal inflammation (P<0.001) whilst rs2642438G>A in MARC1 was associated with lower grade of hepatic steatosis (P=0.02). Proteomics found reduced expression of HSD17B13 in carriers of the protective allele, whereas MARC1 levels were not affected by genotype. Both variants showed downregulation of hepatic fibrotic pathways, upregulation of retinol metabolism and perturbation of phospholipid species. Modelling suggests that p.Ala165Thr would disrupt the stability and metal-binding of MARC1 . Conclusions There are shared genetic mechanisms between pediatric and adult NAFLD, despite their differences in histology. MARC1 and HSD17B13 are involved in phospholipid metabolism and suppress fibrosis in NAFLD.
Sound pickup utilizing an implantable piezoelectric ceramic bimorph element: application to the cochlear implant. (1984)

The degree of sound pickup possible with a piezoelectric ceramic bimorph element ( PCBE ) was tested as part of research on a total implantation system for a cochlear prosthesis. The PCBE functions as an electromechanical transducer and can be utilized as a device to sense vibration in the tympanic membrane by touching it to the malleus head. This method lends itself to the miniaturization and simplification required by an implantable device for sound pickup. The ability of the PCBE to function as a device to pick up sound was investigated using three normal human temporal bones. The sensitivity of the PCBE when coupled to the malleus was calculated as the ratio of the voltage generated by the PCBE to the sound pressure in front of the tympanic membrane, when these factors were processed with a spectrum analyzer. The best sensitivities registered with the three temporal bone specimens were -63, -61, -59 dB re 1 V/Pa, respectively, at 1 kHz. The frequency response curves had resonant frequencies at about 2 kHz and declined beyond 5 kHz. These results indicate that a PCBE coupled to the malleus head performs satisfactorily in regard to sound pickup and shows promise as a component of a totally implanted hearing system.
LHRH antagonist Cetrorelix reduces prostate size and gene expression of proinflammatory cytokines and growth factors in a rat model of benign prostatic hyperplasia (2010)

This study suggests that Cetrorelix reduces various inflammatory cytokines and growth factors in rat prostate and, at doses which do not induce castration levels of testosterone, can lower prostate weights. Our findings shed light on the mechanism of action of LHRH antagonists in BPH.
Accurate prediction of ferrite core loss with nonsinusoidal waveforms using only Steinmetz parameters (2003)

An improved calculation of ferrite core loss for nonsinusoidal waveforms separates a flux trajectory into major and minor loops via a new recursive algorithm. It is highly accurate and outperforms two previous methods for our measured data. The only characteristics of the material required are the standard Steinmetz-equation parameters.
Über Peptidsynthesen, LXI.Über die Inhaltsstoffe des grünen Knollenblätterpilzes, LIII. Totalsynthese von Phallion und [Leu<sup>7</sup>]‐phalloin (1977)

Abstract Die Kupplung des S ‐Chlorids von Boc‐alanyl‐ D ‐threonyl‐cysteinyl‐ allo ‐hydroxyprolin ( 5 ) mit Alanyl‐tryptophyl‐γ‐hydroxyleucinlacton ( 4 ) lieferte den Thioether 6 , dessen Cyclisierung Boc‐geschütztes Secophalloinlacton ( 7 ) ergab. Boc‐Abspaltung, Öffnung des Lactonrings und zweite Cyclisierung führten zu Phalloin ( 1 ), das in seinen physikalischen und toxischen Eigenschaften mit dem Naturstoff identisch war. Ein analoger Syntheseprozeß, aber mit Alanyl‐tryptophyl‐leucin ( 8 ) als Tripeptidkomponente führte zu [Leu 7 ]‐phalloin ( 2 ), einem möglichen biosynthetischen Vorläufer von 1 .
Review of inverse analysis for indirect measurement of impact force (2001)

Abstract When dealing with the mechanics of deformable bodies, the variation of the applied force is one of the most important factors to be considered. The mechanical force acting on a body cannot be measured directly. If a body is loaded quasi-statically and if the body deforms linear-elastically, the deformation at any point of the body is proportional to the applied force. Therefore, the variation of the force can be measured indirectly by measuring the variation of the deformation. However, this principle cannot be applied when a body is subjected to an impulsive force. In this case, the propagation of stress waves inside the body cannot be neglected so that the variation of the deformation at any point of the body is no longer the same as the variation of the applied force. Therefore, impact force is much more difficult to measure than quasi-static force. In order to overcome this difficulty, inverse analysis methods to estimate variations of impact force from measured responses of a body have been studied extensively during the last two decades. This article presents a review of methods of inverse analysis for the indirect measurement of impact force.
Combined Use of Microreflexes and Event‐Related Brain Potentials as Measures of Auditory Selective Attention (1987)

ABSTRACT Two versions of a selective listening experiment were conducted in an attempt to specify the level of the nervous system at which selective attention first influences auditory information processing. Post‐auricular reflexes (PARs), preputse inhibition of reflexes, and the N1 component of the event‐related potential (ERP) were measured concurrently to assess auditory processing in the hindbrain. midbrain. and forebrain. respectively. Sequences of intense, reflex‐eliciting tones were presented to the two ears in random order and at a rapid rate as subjects listened to a designated ear to detect rare tones of slightly lower intensity. The ERPs showed the typical enhancement of early and late negativity (Nd) to attended car tunes, with the early Nd overlapping the evoked N1 component. Although there was an overall effect of attention direction on the efferent limb of the post‐auricular reflex, no effect of selective attention on the afferent limb was observed. A selective sensory attentional effect was found for prepulse inhibition of the post‐auricular reflex: Inhibition of PAR amplitude was enhanced when the immediately preceding tone was in the attended ear relative to when it was in the unattended ear. These results, together with findings from prior studies of reflexes and ERPs. indicate that evoked auditorv activity in the lower brainstem is obligatory and invariant with attention, whereas later activity mediated in the upper brainstem can be modulated by attention.
Structural Basis for a Six Nucleotide Genetic Alphabet (2015)

Expanded genetic systems are most likely to work with natural enzymes if the added nucleotides pair with geometries that are similar to those displayed by standard duplex DNA. Here, we present crystal structures of 16-mer duplexes showing this to be the case with two nonstandard nucleobases (Z, 6-amino-5-nitro-2(1H)-pyridone and P, 2-amino-imidazo[1,2-a]-1,3,5-triazin-4(8H)one) that were designed to form a Z:P pair with a standard "edge on" Watson-Crick geometry, but joined by rearranged hydrogen bond donor and acceptor groups. One duplex, with four Z:P pairs, was crystallized with a reverse transcriptase host and adopts primarily a B-form. Another contained six consecutive Z:P pairs; it crystallized without a host in an A-form. In both structures, Z:P pairs fit canonical nucleobase hydrogen-bonding parameters and known DNA helical forms. Unique features include stacking of the nitro group on Z with the adjacent nucleobase ring in the A-form duplex. In both B- and A-duplexes, major groove widths for the Z:P pairs are approximately 1 Å wider than those of comparable G:C pairs, perhaps to accommodate the large nitro group on Z. Otherwise, ZP-rich DNA had many of the same properties as CG-rich DNA, a conclusion supported by circular dichroism studies in solution. The ability of standard duplexes to accommodate multiple and consecutive Z:P pairs is consistent with the ability of natural polymerases to biosynthesize those pairs. This, in turn, implies that the GACTZP synthetic genetic system can explore the entire expanded sequence space that additional nucleotides create, a major step forward in this area of synthetic biology.
Identification of a Translation Initiation Factor 3 (eIF3) Core Complex, Conserved in Yeast and Mammals, That Interacts with eIF5 (1998)

Only five of the nine subunits of human eukaryotic translation initiation factor 3 (eIF3) have recognizable homologs encoded in the Saccharomyces cerevisiae genome, and only two of these (Prt1p and Tif34p) were identified previously as subunits of yeast eIF3. We purified a polyhistidine-tagged form of Prt1p (His-Prt1p) by Ni2+ affinity and gel filtration chromatography and obtained a complex of approximately 600 kDa composed of six polypeptides whose copurification was completely dependent on the polyhistidine tag on His-Prt1p. All five polypeptides associated with His-Prt1p were identified by mass spectrometry, and four were found to be the other putative homologs of human eIF3 subunits encoded in S. cerevisiae: YBR079c/Tif32p, Nip1p, Tif34p, and YDR429c/Tif35p. The fifth Prt1p-associated protein was eIF5, an initiation factor not previously known to interact with eIF3. The purified complex could rescue Met-tRNAiMet binding to 40S ribosomes in defective extracts from a prt1 mutant or extracts from which Nip1p had been depleted, indicating that it possesses a known biochemical activity of eIF3. These findings suggest that Tif32p, Nip1p, Prt1p, Tif34p, and Tif35p comprise an eIF3 core complex, conserved between yeast and mammals, that stably interacts with eIF5. Nip1p bound to eIF5 in yeast two-hybrid and in vitro protein binding assays. Interestingly, Sui1p also interacts with Nip1p, and both eIF5 and Sui1p have been implicated in accurate recognition of the AUG start codon. Thus, eIF5 and Sui1p may be recruited to the 40S ribosomes through physical interactions with the Nip1p subunit of eIF3.
High-Bandwidth Plastic Optical Fiber With W-Refractive Index Profile (2004)

A plastic optical fiber having a W-shaped refractive index profile [W-shaped plastic optical fiber (POF)] was prepared for the first time to realize a higher bit rate transmission than those of the conventional silica-based multimode fiber and graded-index (GI) POF links. Since the W-shaped POF has a valley of the refractive index at the boundary of the core and cladding of the conventional GI POF, the group delay of higher order modes is strongly influenced, thus compensating the modal dispersion that exists in the GI POF. The modal dispersion compensation effect by the W-shaped index profile was theoretically and experimentally confirmed.
Recognizing faces in news photographs on the web (2009)

We propose a graph based method in order to recognize the faces that appear on the web using a small training set. First, relevant pictures of the desired people are collected by querying the name in a text based search engine in order to construct the data set. Then, detected faces in these photographs are represented using SIFT features extracted from facial features. The similarities of faces are represented in a graph which is then used in random walk with restart algorithm to provide links between faces. Those links are used for recognition by using two different methods.
Retreatment of patients with chronic hepatitis C (2002)

Significant advances have been made in the treatment of chronic hepatitis C virus (HCV) infection during the past 5 years. As a consequence, there is continuing enthusiasm for retreating patients who did not achieve sustained virological response (SVR) with previous therapy. Retreatment of non-responders to standard interferon monotherapy using interferon and ribavirin has yielded SVR rates of 12% to 15%. Retreatment with peginterferon and ribavirin has been more effective; achieving SVR rates of 34% to 40%. Retreatment of patients who relapsed after interferon monotherapy using standard interferon and ribavirin yielded SVR rates of 47%, whereas retreatment with peginterferon and ribavirin resulted in an SVR rate of about 60%. The major factors associated with a higher likelihood of an SVR after retreatment include previous relapse, previous treatment with interferon monotherapy, HCV genotypes 2 or 3, lower serum levels of HCV RNA, and having a significant decrease in HCV RNA levels during the initial course of therapy. These results help to focus retreatment with peginterferon and ribavirin on subsets of patients who are most likely to benefit.
Immunogenicity of a Recombinant Human Immunodeficiency Virus (HIV)–Canarypox Vaccine in HIV‐Seronegative Ugandan Volunteers: Results of the HIV Network for Prevention Trials 007 Vaccine Study (2003)

In the first preventative human immunodeficiency virus (HIV) vaccine study to be carried out in Africa, 40 HIV-seronegative Ugandan volunteers were randomly assigned to receive a canarypox vector containing HIV-1 clade B (env and gag-pro) antigens (ALVAC-HIV; n = 20), control vector containing the rabies virus glycoprotein G gene (n = 10), or saline placebo (n = 10). Cytotoxic T lymphocyte activity against target cells expressing clade A, B, and D antigens was assessed using standard chromium-release and confirmatory interferon-gamma enzyme-linked immunospot (ELISPOT) assays. Neutralizing antibody responses to cell line-adapted strains and primary isolates in all 3 clades were also tested. Twenty percent of vaccine recipients generated detectable cytolytic responses to either Gag or Env, and 45% had vaccine-induced HIV-specific CD8(+) T cell responses, as measured by the ELISPOT assay. In contrast, only 5% of the control group had vaccine-specific responses. Neutralizing antibodies against primary and laboratory-adapted HIV-1 clade B strains were seen in 10% and 15% of vaccine recipients, respectively, but responses against clades A and D were not detected. Although the immunogenicity of this clade B-based vaccine was low, ALVAC-HIV elicited CD8(+) T cell responses with detectable cross-activity against clade A and D antigens in a significant proportion of vaccine recipients.
Silica supported ruthenium oxide nanoparticulates as efficient catalysts for water oxidation (2012)

Pre-synthesized ruthenium dioxide nanoparticulates (RuO(2) NPs) with low level of aggregation were well dispersed in mesoporous silica SBA-15. As a catalyst for water oxidation, the supported RuO(2) NPs exhibit excellent catalytic activity and recyclability. The initial turnover frequency (TOF) is to date the highest among comparable RuO(2) catalysts.
Toxicokinetics and Toxicodynamics of Ayahuasca Alkaloids N,N-Dimethyltryptamine (DMT), Harmine, Harmaline and Tetrahydroharmine: Clinical and Forensic Impact (2020)

Ayahuasca is a hallucinogenic botanical beverage originally used by indigenous Amazonian tribes in religious ceremonies and therapeutic practices. While ethnobotanical surveys still indicate its spiritual and medicinal uses, consumption of ayahuasca has been progressively related with a recreational purpose, particularly in Western societies. The ayahuasca aqueous concoction is typically prepared from the leaves of the <i>N</i>,<i>N</i>-dimethyltryptamine (DMT)-containing <i>Psychotria viridis</i>, and the stem and bark of <i>Banisteriopsis caapi</i>, the plant source of harmala alkaloids. Herein, the toxicokinetics and toxicodynamics of the psychoactive DMT and harmala alkaloids harmine, harmaline and tetrahydroharmine, are comprehensively covered, particularly emphasizing the psychological, physiological, and toxic effects deriving from their concomitant intake. Potential therapeutic utility, particularly in mental and psychiatric disorders, and forensic aspects of DMT and ayahuasca are also reviewed and discussed. Following administration of ayahuasca, DMT is rapidly absorbed and distributed. Harmala alkaloids act as potent inhibitors of monoamine oxidase A (MAO-A), preventing extensive first-pass degradation of DMT into 3-indole-acetic acid (3-IAA), and enabling sufficient amounts of DMT to reach the brain. DMT has affinity for a variety of serotonergic and non-serotonergic receptors, though its psychotropic effects are mainly related with the activation of serotonin receptors type 2A (5-HT<sub>2A</sub>). Mildly to rarely severe psychedelic adverse effects are reported for ayahuasca or its alkaloids individually, but abuse does not lead to dependence or tolerance. For a long time, the evidence has pointed to potential psychotherapeutic benefits in the treatment of depression, anxiety, and substance abuse disorders; and although misuse of ayahuasca has been diverting attention away from such clinical potential, research onto its therapeutic effects has now strongly resurged.
Metamaterial localized resonance sensors: prospects and limitations (2010)

The prospects and limitations of metamaterial localized resonance sensors are investigated theoretically and experimentally. Gold split-ring resonators are employed as the model system where the light induced LC-resonance yields a figure-of-merit, sensitivity divided by linewidth, up to 54 depending on the split-ring resonator design and engineering of the light-plasmon coupling. This highest measured value is comparable to quasi-static predictions, suggesting incremental improvements beyond this point. Further optimization attempts show the effect of inhomogeneous broadening giving some indication that the limits have been reached for this particular design and material choice.