gebhart/patrepeval huggingface dataset:
Oxytocin Attenuates Stress-Induced c-fosmRNA Expression in Specific Forebrain Regions Associated with Modulation of Hypothalamo–Pituitary–Adrenal Activity (2004)

We reported previously that the neuropeptide oxytocin attenuates stress-induced hypothalamo-pituitary-adrenal (HPA) activity and anxiety behavior. This study sought to identify forebrain target sites through which oxytocin may mediate its anti-stress effects. Ovariectomized, estradiol-treated rats received intracerebroventricular infusions of oxytocin (1 or 10 ng/hr) or vasopressin (10 ng/hr), and the patterns of neuronal activation after restraint stress were determined by semiquantitative mapping of c-fos mRNA expression. Oxytocin administration significantly attenuated the release of ACTH and corticosterone and the increase in corticotropin-releasing factor mRNA expression in the hypothalamic paraventricular nucleus (PVN) in response to 30 min restraint. Restraint also induced the expression of c-fos mRNA in selective regions of the forebrain, including the PVN, paraventricular thalamic nucleus, habenula, medial amygdala, ventrolateral septum (LSV), most subfields of the dorsal and ventral hippocampus, and piriform and endopiriform cortices. In most cases, this level of gene expression was unaffected by concomitant administration of oxytocin. However, in the PVN, LSV, and throughout all subfields of the dorsal hippocampus, restraint evoked no detectable increase in c-fos mRNA in animals treated with either dose of oxytocin. Vasopressin had no effects on either HPA axis responses or neuronal activation in response to restraint, indicating that the effects were highly peptide selective. These data show that central oxytocin attenuates both the stress-induced neuroendocrine and molecular responses of the HPA axis and that the dorsal hippocampus, LSV, and PVN constitute an oxytocin-sensitive forebrain stress circuit.
Discovering What Makes STAT Signaling TYK in T-ALL (2013)

RNA interference screening establishes TYK2 dependence in T-cell acute lymphoblastic leukemia (T-ALL), leading to identification of TYK2-activating mutations and increased IL-10 receptor signaling in T-ALL cell lines. Cancer Discov; 3(5); 494-6. ©2013 AACR.
Functional Genomics in Plants (1998)

The sequencing of the first genome of a higher plant, Arabidopsis, is progressing at a rapid pace. As we are writing these words, almost one-third of the estimated 100 Mb is available in public databases, and with appropriate funding the complete genome sequence is predicted to be finished by the
Accelerated telomere shortening in response to life stress (2004)

Numerous studies demonstrate links between chronic stress and indices of poor health, including risk factors for cardiovascular disease and poorer immune function. Nevertheless, the exact mechanisms of how stress gets "under the skin" remain elusive. We investigated the hypothesis that stress impacts health by modulating the rate of cellular aging. Here we provide evidence that psychological stress--both perceived stress and chronicity of stress--is significantly associated with higher oxidative stress, lower telomerase activity, and shorter telomere length, which are known determinants of cell senescence and longevity, in peripheral blood mononuclear cells from healthy premenopausal women. Women with the highest levels of perceived stress have telomeres shorter on average by the equivalent of at least one decade of additional aging compared to low stress women. These findings have implications for understanding how, at the cellular level, stress may promote earlier onset of age-related diseases.
Catalytic Antibodies (1986)

Monoclonal antibodies elicited to haptens that are analogs of the transition state for hydrolysis of carboxylic esters behaved as enzymic catalysts with the appropriate substrates. These substrates are distinguished by the structural congruence of both hydrolysis products with haptenic fragments. The haptens were potent inhibitors of this esterolytic activity, in agreement with their classification as transition state analogs. Mechanisms are proposed to account for the different chemical behavior of these antibodies with two types of ester substrates. The generation of an artificial enzyme through transition state stabilization by antibodies was thus demonstrated. These studies indicate a potentially general approach to catalyst design.
Red blood cell omega-3 fatty acid levels and neurocognitive performance in deployed U.S. Servicemembers (2012)

To explore the cross-sectional relationships between blood eicosapentaenoic acid + docosahexaenoic acid (HSOmega-3 Index(®)) and sleep disorders, depression, anxiety, and neurocognitive performance in Servicemembers deployed to Iraq.Servicemembers with mild-to-moderate depression by the Patient Health Questionnarie-9 from two US military camps were invited to participate in this study. A battery of validated psychosocial (Pittsburgh Sleep Quality Index, and Zung Depression, Zung Anxiety, Epworth Sleepiness, and Combat Experiences scales) and computerized neurocognitive tests were completed by each participant. Five neurocognitive domain scores were calculated--Processing Speed, Complex Attention, Reaction Time, Cognitive Flexibility (CF), and Executive Function (EF). A drop of blood was also collected on an anti-oxidant-treated filter paper card and sent for HS-Omega-3 Index(®) analysis. An analysis of variance contrast was used to test for linear trends between quartiles of the HS-Omega-3 Index(®) for both EF and CF.The mean HS-Omega-3 Index(®) was 3.5 ± 0.7% (n = 78). The HS-Omega-3 Index(®) was not significantly associated with scores for anxiety, depression, or sleep, whether assessed as continuous or dichotomous variables, but was directly associated with CF and EF (P < 0.02 and 0.01, respectively), especially in the 81% who reported poor sleep quality. In those with poor sleep quality (n = 63), EF and CF were higher (P = 0.005) in subjects with Omega-3 levels above versus below the mean.Optimal neurocognitive performance is essential during deployment. Our finding that EF and CF were positively related to HS-Omega-3 Index(®) suggests that improving omega-3 status through an increase in omega-3 intake may improve neurocognitive performance and confer an element of resilience to poor sleep.
Cyclic ADP-ribose and NAADP: fraternal twin messengers for calcium signaling (2011)

The concept advanced by Berridge and colleagues that intracellular Ca(2+)-stores can be mobilized in an agonist-dependent and messenger (IP(3))-mediated manner has put Ca(2+)-mobilization at the center stage of signal transduction mechanisms. During the late 1980s, we showed that Ca(2+)-stores can be mobilized by two other messengers unrelated to inositol trisphosphate (IP(3)) and identified them as cyclic ADP-ribose (cADPR), a novel cyclic nucleotide from NAD, and nicotinic acid adenine dinucleotide phosphate (NAADP), a linear metabolite of NADP. Their messenger functions have now been documented in a wide range of systems spanning three biological kingdoms. Accumulated evidence indicates that the target of cADPR is the ryanodine receptor in the sarco/endoplasmic reticulum, while that of NAADP is the two pore channel in endolysosomes.As cADPR and NAADP are structurally and functionally distinct, it is remarkable that they are synthesized by the same enzyme. They are thus fraternal twin messengers. We first identified the Aplysia ADP-ribosyl cyclase as one such enzyme and, through homology, found its mammalian homolog, CD38. Gene knockout in mice confirms the important roles of CD38 in diverse physiological functions from insulin secretion, susceptibility to bacterial infection, to social behavior of mice through modulating neuronal oxytocin secretion. We have elucidated the catalytic mechanisms of the Aplysia cyclase and CD38 to atomic resolution by crystallography and site-directed mutagenesis. This article gives a historical account of the cADPR/NAADP/CD38-signaling pathway and describes current efforts in elucidating the structure and function of its components.
Comparison of SHF and SSF processes from steam‐exploded wheat straw for ethanol production by xylose‐fermenting and robust glucose‐fermenting Saccharomyces cerevisiae strains (2008)

In this study, bioethanol production from steam-exploded wheat straw using different process configurations was evaluated using two Saccharomyces cerevisiae strains, F12 and Red Star. The strain F12 has been engineerically modified to allow xylose consumption as cereal straw contain considerable amounts of pentoses. Red Star is a robust hexose-fermenting strain used for industrial fuel ethanol fermentations and it was used for comparative purposes. The highest ethanol concentration, 23.7 g/L, was reached using the whole slurry (10%, w/v) and the recombinant strain (F12) in an SSF process, it showed an ethanol yield on consumed sugars of 0.43 g/g and a volumetric ethanol productivity of 0.7 g/L h for the first 3 h. Ethanol concentrations obtained in SSF processes were in all cases higher than those from SHF at the same conditions. Furthermore, using the whole slurry, final ethanol concentration was improved in all tests due to the increase of potential fermentable sugars in the fermentation broth. Inhibitory compounds present in the pretreated wheat straw caused a significantly negative effect on the fermentation rate. However, it was found that the inhibitors furfural and HMF were completely metabolized by the yeast during SSF by metabolic redox reactions. An often encountered problem during xylose fermentation is considerable xylitol production that occurs due to metabolic redox imbalance. However, in our work this redox imbalance was counteracted by the detoxification reactions and no xylitol was produced.
Very low-loss distributed X-band and Ka-band MEMS phase shifters using metal-air-metal capacitors (2003)

2-bit wide-band distributed coplanar-waveguide phase shifters have been developed on a 500-/spl mu/m quartz substrate for X- and Ka-band operation. The designs utilize microelectromechanical system (MEMS) switches in a distributed MEMS transmission line periodically loaded by MEMS switches and high Q (/spl ges/250 at 30 GHz) metal-air-metal capacitors. The MEMS switches are actuated by a /spl plusmn/20-V voltage waveform using a high-resistance bias line. Estimated spring constant and switching time is 30 N/m and 9 /spl mu/s, respectively. The Ka-band 2-bit design results in a reflection coefficient better than -11.5 dB, an average insertion loss of -1.5 dB and phase shifts of 0/spl deg/, 89/spl deg/, 180/spl deg/, and 270/spl deg/ at 37.7 GHz. The X-band 2-bit design results in a reflection coefficient better than -12.5 dB, an average insertion loss of -1.2 dB and phase shifts of 0/spl deg/, 94/spl deg/, 176/spl deg/, and 270/spl deg/ at 13.6 GHz. These results are very competitive with switched transmission-line and reflection-based phase shifters. The distributed design can be easily scaled to V- and W-band frequencies for wide-band low-loss performance.
Electromagnetic Brain Stimulation in Patients With Disorders of Consciousness (2019)

Severe brain injury is a common cause of coma. In some cases, despite vigilance improvement, disorders of consciousness (DoC) persist. Several states of impaired consciousness have been defined, according to whether the patient exhibits only reflexive behaviors as in the vegetative state/unresponsive wakefulness syndrome (VS/UWS) or purposeful behaviors distinct from reflexes as in the minimally conscious state (MCS). Recently, this clinical distinction has been enriched by electrophysiological and neuroimaging data resulting from a better understanding of the physiopathology of DoC. However, therapeutic options, especially pharmacological ones, remain very limited. In this context, electroceuticals, a new category of therapeutic agents which act by targeting the neural circuits with electromagnetic stimulations, started to develop in the field of DoC. We performed a systematic review of the studies evaluating therapeutics relying on the direct or indirect electro-magnetic stimulation of the brain in DoC patients. Current evidence seems to support the efficacy of deep brain stimulation (DBS) and non-invasive brain stimulation (NIBS) on consciousness in some of these patients. However, while the latter is non-invasive and well tolerated, the former is associated with potential major side effects. We propose that all chronic DoC patients should be given the possibility to benefit from NIBS, and that transcranial direct current stimulation (tDCS) should be preferred over repetitive transcranial magnetic stimulation (rTMS), based on the literature and its simple use. Surgical techniques less invasive than DBS, such as vagus nerve stimulation (VNS) might represent a good compromise between efficacy and invasiveness but still need to be further investigated.
Murine gamma interferon inhibits v-mos-induced fibroblast transformation via down regulation of retroviral gene expression (1987)

Expression of the retroviral vector Neor myeloproliferative sarcoma virus (MPSV), which contains the v-mos oncogene and the neomycin resistance gene, leads to neoplastic transformation of mouse fibroblasts. Murine recombinant gamma interferon (IFN-gamma) could revert the neoplastic properties of established Neor MPSV-transformed cell lines to an apparently untransformed phenotype. In the presence of IFN-gamma, the Neor MPSV transformants showed a greater than 97% reduction of cloning efficiency in soft agar, strongly reduced proliferative capacity, and morphological changes. The IFN-gamma-induced phenotypic reversion was preceded by a rapid and selective reduction of all retroviral RNA species, apparently due to IFN-gamma action on the long terminal repeat of Neor MPSV. The mRNA levels of cellular genes either remained unaffected (beta-actin) or were even enhanced (H-2) in IFN-gamma-treated Neor MPSV-transformed cells. Upon removal of IFN-gamma, retroviral gene expression was fully recovered and a gradual reappearance of the transformed phenotype of these cells within 3 weeks was noted. These data show that IFN-gamma can cause a virtually complete, but reversible, inhibition of v-mos-induced neoplastic properties in transformed fibroblasts by selective down regulation of retroviral RNA levels.
The purification and some properties of the Mg2+-activated cytosolic aldehyde dehydrogenase of Saccharomyces cerevisiae (1996)

A purification procedure has been developed for the cytosolic aldehyde dehydrogenase of Saccharomyces cerevisiae that yields homogeneous enzyme. The enzyme seems to be a tetramer of identical 58 kDa subunits. The enzyme reaction is strongly stimulated by Mg2+ at low NADP+ concentrations but there is no absolute requirement for bivalent cations. The kinetics of the reaction have been studied in the presence and absence of MgCl2. NADP+ binding studies of the quenching of protein fluorescence in the presence and absence of MgCl2 show that the effect of Mg2+ is to increase the affinity of the enzyme for NADP+ by approx. 100-fold. NADP+ binding causes a slow conformational change in the enzyme and converts the enzyme from the inactive or low-activity form in which it is isolated into the fully active form. This conformational change seems to explain the marked lag-phases seen in enzyme assays. The enzyme is strongly inhibited by disulfiram and pyridoxal 5-phosphate.
The RNA N-glycosidase activity of ricin A-chain. The characteristics of the enzymatic activity of ricin A-chain with ribosomes and with rRNA. (1988)

Ricin A-chain cleaves the N-glycosidic bond at A-4324 in 28 S rRNA when intact rat ribosomes are the substrate. Cleavage occurs at a concentration of the toxin of 1 X 10(-10) M, and specificity for this single residue is retained when the concentration is as high as 3 X 10(-7) M. The apparent Michaelis constant (Km) for the reaction is 2.6 microM, and the turnover number (Kcat) is 1777 min-1. The same N-glycosidic bond is cleaved by ricin A-chain in naked 28 S rRNA, but at a greatly reduced rate. The Km value for this reaction is 5.8 microM. The results suggest that the A-chain has a similar affinity for 28 S rRNA in ribosomes and in the absence of ribosomal proteins. Ricin A-chain has no effect on 23 S rRNA in Escherichia coli ribosomes, however, the N-glycosidic bond at A-2600 in naked 23 S rRNA is cleaved by the toxin; this corresponds to the ricin site in eukaryotic 28 S rRNA. Since the Km value (3.3 microM) for the reaction with E. coli 23 S rRNA approximates that obtained with rat liver ribosomes, it is possible that E. coli ribosomal protein(s) protect this site against ricin attack in intact ribosomes. Ricin A-chain also acted on naked 16 S rRNA cleaving the N-glycosidic bond of adenine at position 1014. The results suggest that ricin A-chain recognizes a specific structure in rRNA, perhaps a loop and stem having the sequence GAGA in the loop.
Bacteroides gingivalis and Bacteroides intermedius recognize different sites on human fibrinogen (1990)

Bacteroides (Porphyromonas) gingivalis and Bacteroides (Porphyromonas) intermedius have been implicated in the etiology of human periodontal diseases. These organisms are able to bind and degrade human fibrinogen, and these interactions may play a role in the pathogenesis of periodontal disease. In attempts to map the bacterial binding sites along the fibrinogen molecule, we have found that strains of B. gingivalis and B. intermedius, respectively, recognize spatially distant and distinct sites on the fibrinogen molecule. Isolated reduced and alkylated alpha-, beta-, and gamma-fibrinogen chains inhibited binding of 125I-fibrinogen to both Bacteroides species in a concentration-dependent manner. Plasmin fragments D and to some extent fragment E, however, produced a concentration-dependent inhibition of 125I-fibrinogen binding to B. intermedius strains but did not affect binding of 125I-fibrinogen to B. gingivalis strains. Radiolabeled fibrinogen chains and fragments were compared with 125I-fibrinogen with respect to specificity and reversibility of binding to bacteria. According to these criteria, gamma chain most closely resembled the native fibrinogen molecule in behavior toward B. gingivalis strains and fragments D most closely resembled fibrinogen in behavior toward B. intermedius strains. The ability of anti-human fibrinogen immunoglobulin G (IgG) to inhibit binding of 125I-fibrinogen to B. intermedius strains was greatly reduced by absorbing the IgG with fragments D. Absorbing the IgG with fragments D had no effect on the ability of the antibody to inhibit binding of 125I-fibrinogen to B. gingivalis strains. A purified staphylococcal fibrinogen-binding protein blocked binding of 125I-fibrinogen to B. intermedius strains but not to B. gingivalis strains.
Effect of bending buckling of carbon nanotubes on thermal conductivity of carbon nanotube materials (2012)

The effect of bending buckling of carbon nanotubes (CNTs) on thermal conductivity of CNT materials is investigated in atomistic and mesoscopic simulations. Nonequilibrium molecular dynamics simulations of the thermal conductance through an individual buckling kink in a (10,10) single-walled CNT reveal a strong dependence (close to inverse proportionality) of the thermal conductance of the buckling kink on the buckling angle. The value of the buckling kink conductance divided by the cross-sectional area of the CNT ranges from 40 to 10 GWm−2 K−1 as the buckling angle changes from 20 to 110°. The predictions of the atomistic simulations are used for parameterization of a mesoscopic model that enables calculations of thermal conductivity of films composed of thousands of CNTs arranged into continuous networks of bundles. The results of mesoscopic simulations demonstrate that the conductivity of CNT films is sensitive to the angular dependence of the buckling kink conductance and the length of the individual CNTs. For a film composed of 1 µm-long CNTs, the values of the in-plane film conductivity predicted with a constant conductance of 20 GWm−2 K−1 and the angular-dependent conductance obtained in atomistic simulations are about 40 and 20% lower than the conductivity predicted for the same film with zero thermal resistance of the buckling kinks, respectively. The weaker impact of the angular-dependent buckling kink conductance on the effective conductivity of the film is explained by the presence of a large fraction of kinks that have small buckling angles and correspondingly large values of conductance. The results of the simulations suggest that the finite conductance of the buckling kinks has a moderate, but non-negligible, effect on thermal conductivity of materials composed of short CNTs with length up to 1 µm. The contribution of the buckling kink thermal resistance becomes stronger for materials composed of longer CNTs and/or characterized by higher density of buckling kinks.
Hypertext: An Introduction and Survey (1987)

This article is a survey of existing hypertext systems, their applications, and their design. It is both an introduction to the world of hypertext and, at a deeper cut, a survey of some of the most important design issues that go into fashioning a hypertext environment. The concept of hypertext is quite simple: Windows on the screen are associated with objects in a database, and links are provided between these objects, both graphically (as labelled tokens) and in the database (as pointers). But this simple idea is creating much excitement. Several universities have created laboratories for research on hypertext, many articles have been written about the concept just within the last year, and the Smithsonian Institute has created a demonstration laboratory to develop and display hypertext technologies.
Computer-controlled portable stimulator for paraplegic patients (1993)

A six-channel lightweight, portable and computer-controlled stimulator for the functional activation of paraplegic patients is described. To enable programming of the various functions, the stimulator was designed to work in a remote-control mode hosted by an IBM PC or compatible computer, in addition to its normally used local mode. The stimulus parameters, including current intensity, stimulus frequency and pulse width, are individually adjustable and programmable for each channel. The power source is 12 V 500 m Ah-1, from 10 rechargeable nickel cadmium batteries, with a run time of 1.5 h for a load of 200 mA in four channels. Various training programmes for the activation of paraplegics in the sitting, standing and walking positions are described. The final design of the stimulator is based on experience gained from 25 patients, treated and evaluated during the course of development. Ongoing work including clinical, biomechanical and physiological studies is carried out to evaluate performance of the activated patients and to optimize stimulation.
Static and Dynamic Wetting Measurements of Single Carbon Nanotubes (2004)

Individual carbon nanotubes were immersed and removed from various organic liquids using atomic force microscopy. The carbon nanotube-liquid interactions could be monitored in situ, and accurate measurements of the contact angle between liquids and the nanotube surface were made. These wetting data were used to produce Owens and Wendt plots giving the dispersive and polar components of the nanotube surface.