gebhart/patrepeval huggingface dataset:
Protamines and male infertility (2006)

Protamines are the major nuclear sperm proteins. The human sperm nucleus contains two types of protamine: protamine 1 (P1) encoded by a single-copy gene and the family of protamine 2 (P2) proteins (P2, P3 and P4), all also encoded by a single gene that is transcribed and translated into a precursor protein. The protamines were discovered more than a century ago, but their function is not yet fully understood. In fact, different hypotheses have been proposed: condensation of the sperm nucleus into a compact hydrodynamic shape, protection of the genetic message delivered by the spermatozoa, involvement in the processes maintaining the integrity and repair of DNA during or after the nucleohistone-nucleoprotamine transition and involvement in the epigenetic imprinting of the spermatozoa. Protamines are also one of the most variable proteins found in nature, with data supporting a positive Darwinian selection. Changes in the expression of P1 and P2 protamines have been found to be associated with infertility in man. Mutations in the protamine genes have also been found in some infertile patients. Transgenic mice defective in the expression of protamines also present several structural defects in the sperm nucleus and have variable degrees of infertility. There is also evidence that altered levels of protamines may result in an increased susceptibility to injury in the spermatozoan DNA causing infertility or poor outcomes in assisted reproduction. The present work reviews the articles published to date on the relationship between protamines and infertility.
Discrimination between methicillin-resistant and methicillin- susceptible Staphylococcus aureus using pyrolysis mass spectrometry and artificial neural networks (1998)

Curie-point pyrolysis mass spectra were obtained from 15 methicillin-resistant and 22 methicillin-susceptible Staphylococcus aureus strains. Cluster analysis showed that the major source of variation between the pyrolysis mass spectra resulted from the phage group of the bacteria, not their resistance or susceptibility to methicillin. By contrast, artificial neural networks could be trained to recognize those aspects of the pyrolysis mass spectra that differentiated methicillin-resistant from methicillin-sensitive strains. The trained neural network could then use pyrolysis mass spectral data to assess whether an unknown strain was resistant to methicillin. These results give the first demonstration that the combination of pyrolysis mass spectrometry with neural networks can provide a very rapid and accurate antibiotic susceptibility testing technique.
Flexible thin polymer waveguide Bragg grating sensor foils for strain sensing (2017)

This paper demonstrates that epoxy-based single mode polymer waveguides with Bragg gratings can be realized in very thin (down to 50 micron) polymer foils which are suitable for strain sensing when integrated inside glass fiber reinforced polymer composite materials. The single mode waveguides were fabricated using laser direct-write lithography and the gratings were realized using nanoimprint lithography. These steps were performed on a temporary rigid carrier substrate and afterwards the functional layers were released yielding the thin, flexible sensor foils which can be laser-cut to the required dimensions. The Bragg grating-based polymer waveguide sensor foils were characterized before and after embedding into the composite. As expected, there was a blue shift in the reflection spectrum because of residual strain due to the embedding process. However, the quality of the signal did not degrade after embedding, both for 50 and 100 micron thick sensor foils. Finally, the sensitivity to strain of the embedded sensors was determined using a tensile test and found to be about 1 pm / microstrain.
Enantiomers, Racemates, and Resolutions (1981)

RACEMATES AND THEIR ENANTIOMER CONSTITUENTS. Types of Crystalline Racemates. Binary Mixtures of Enantiomers. Solution Properties of Enantiomers and Their Mixtures. RESOLUTION OF ENANTIOMER MIXTURES. Resolution by Direct Crystallization. Formation and Separation of Diastereomers. Crystallization-Induced Asymmetric Transformations. Experimental Aspects and Art of Resolutions. Index.
Aequorin-Based Functional Assays for G-Protein-Coupled Receptors, Ion Channels, and Tyrosine Kinase Receptors (2002)

Aequorin is a photoprotein originating from jellyfish, whose luminescent activity is dependent on the concentration of calcium ions. Due to the high sensitivity and low background linked to luminescent assays, as well as to its absence of toxicity and its large linear dynamic range, aequorin has been used as an intracellular calcium indicator since its discovery in the early 1960s. The first applications of aequorin involved its microinjection in cells. The cloning of its gene in 1985 opened the way to the stable expression of aequorin in cell lines or even entire organisms. Here we present the validation of aequorin as a functional assay for the screening of G-protein-coupled receptors, ion channels, and tyrosine kinase receptors, as well as for their pharmacological characterization in agonist and antagonist detection assays. We optimized our cell suspension-based assay and determined that the most sensitive assay was performed at room temperature, with mitochondrially expressed aequorin and using coelenterazine derivative h for reconstitution of aequorin. The robustness of the assay and the current availability of luminometers with integrated injectors allow aequorin to fit perfectly with high throughput functional assays requirements.
Genetic dissection of anxiety in autoimmune disease (2003)

Systemic lupus erythematosus (SLE), a complex multigenic disease, is characterized by hypergammaglobulinemia, autoantibody production and immune complex-type lupus nephritis. In addition to these signs and symptoms in SLE, there can be symptoms of neurological disorders, including anxiety. To clarify mechanisms governing the anxiety seen in lupus, we carried out genome-wide scans, and found that the region including interferon-alpha (IFN-alpha) on NZB chromosome 4 is significantly linked to the anxiety-like behavior seen in SLE-prone New Zealand Black (NZB) x New Zealand White (NZW) F(1) (B/W F(1)) mice. This finding was confirmed by anxiety-like performances of mice with heterozygous NZB/NZW alleles in the susceptibility region onto the NZW background. In B/W F(1) mice, neuronal IFN-alpha levels were elevated, and blockade of the micro (1) opioid receptor or corticotropin-releasing hormone receptor 1, possible downstream effectors for IFN-alpha in the brain partially overcame the anxiety-like behavior seen in the B/W F(1) mice. Consistently, neuronal corticotropin-releasing hormone levels were higher in B/W F(1) than NZW mice. Furthermore, pretreatment of micro (1) opioid receptor antagonist abolished anxiety-like behaviour seen in IFN-alpha-treated NZW mice. Anxiety is shown to be mediated by multiple mediators. Our data suggest that a genetically determined endogenous excess amount of IFN-alpha in the brain may form one aspect of anxiety-like behavior seen in SLE-prone mice.
Temperature programming and gradient elution in reversed-phase chromatography with packed capillary columns (1997)

The two major anisocratic elution modes were compared in reversed-phase chromatography with 180 microns I.D. fused-silica capillary columns packed with 6 microns Zorbax SB ODS-silica. By evaluating the retention factors of alkylbenzenes at acetonitrile concentrations varying from 60 to 80% (v/v) in the aqueous eluent and in the temperature range of 30-80 degrees C, it was found that a 5 degrees C change in column temperature and a 1% change in acetonitrile concentration have almost the same effect on retention. This is illustrated by the almost identical chromatograms of an alkylbenzene sample obtained by temperature programming and by gradient elution under the same conditions otherwise and by simulation of the trajectories of the eluent peaks moving down the column. The results suggest that in reversed-phase HPLC with packed capillary columns temperature programming offers an alternative to gradient elution in a relatively narrow range of the required elution strength. Thermodynamic data from isocratic chromatographic measurements were used to predict the retention times of alkylbenzenes in reversed-phase chromatography with temperature programming at different heating rates and column inlet pressures. Temperature programming was used to separate beta-lactoglobulins A and B by reversed-phase chromatography. It was also employed concomitantly with gradient elution to enhance the separation of a mixture of four standard proteins. The results indicate that temperature programming could serve as an adjunct to gradient elution by means of fine retention tuning to bring about or increase the resolution of closely related macromolecules.
Chemical engineers' handbook (1950)

ADVERTISEMENT RETURN TO ISSUEPREVBook and Media Revie...Book and Media ReviewNEXTChemical engineers' handbookJohn H. Perry Cite this: J. Chem. Educ. 1950, 27, 9, 533Publication Date (Print):September 1, 1950Publication History Received3 August 2009Published online1 September 1950Published inissue 1 September 1950https://doi.org/10.1021/ed027p533.1RIGHTS & PERMISSIONSArticle Views11091Altmetric-Citations175LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (1 MB) Get e-Alerts Get e-Alerts
A Potpourri of Probing and Treating Biofilms of the Oral Cavity (2009)

Decades before biofilms were named, microbiologists studying bacteria in the oral cavity realized that complex microbial communities form plaque on tooth surfaces—perhaps the prototype for much of biofilm research today. Some of that oral cavity-focused biofilm research is leading to new products to combat plaque and bad breath, while other efforts are providing insights about how microorganisms behave within these complex oral communities. Here are some highlights from the 25th annual Biofilm Science & Technology (BST) meeting, convened at the Center for Biofilm Engineering (CBE) at Montana State University (MSU) in Bozeman last July.
Vectored transmission for digital subscriber line systems (2002)

This paper describes the "vectored" transmission technique for digital subscriber line (DSL) systems, which utilizes user coordination at the central office or optical network unit. This method exploits the colocation of the downstream transmitters and of the upstream receivers, in order to achieve far-end crosstalk (FEXT) cancellation and perform multiuser transmission optimization. The performance improvements are particularly pronounced in environments with strong FEXT such as in very high-speed DSL. Discrete multitone is employed for each user with additional constraints on the cyclic prefix length and with the assumption of block-synchronized transmission and reception for downstream and upstream transmission correspondingly. Within each tone, upstream crosstalk is removed by multiple-input-multiple-output decision feedback at the receiving side, while downstream crosstalk is eliminated by analogous preprocessing at the transmitting side. Additionally, the issue of transmission energy allocation in frequency and among users is addressed. Assuming frequency-division duplexing, the corresponding optimization problem is formulated and solved via convex programming both for a fixed upstream-downstream band plan and for a dynamically programmable band plan. The case of power backoff as a means to reduce the impact of crosstalk on alien systems is also treated. Interestingly, the performance of the proposed methods is shown to be very close to known information theory bounds.
Multi-fiber linear lightwave networks (2002)

Linear lightwave networks (LLNs) (Stern, 1990) are optical networks in which network nodes perform "linear" operations only on optical signals: power splitting, combining, and possibly nonregenerative amplification. While previous efforts on LLNs assume only one fiber per link, the present authors consider a multi-fiber linear lightwave network (M-LLN) for telecommunication networks, where network exchanges are normally connected by multi-fiber cables. An M-LLN can provide an optically transparent path between network exchanges, hence can avoid congestion bottlenecks at intermediate switches. More importantly, the network capacity is scalable with the number of available wavelengths as technology progresses. To demonstrate the feasibility, they propose a class of linear path allocation schemes (LPAS) for setting up optical paths, and discuss the implementation issues in detail.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
The Effects of Glycine on Subjective Daytime Performance in Partially Sleep-Restricted Healthy Volunteers (2012)

Approximately 30% of the general population suffers from insomnia. Given that insomnia causes many problems, amelioration of the symptoms is crucial. Recently, we found that a non-essential amino acid, glycine subjectively and objectively improves sleep quality in humans who have difficulty sleeping. We evaluated the effects of glycine on daytime sleepiness, fatigue, and performances in sleep-restricted healthy subjects. Sleep was restricted to 25% less than the usual sleep time for three consecutive nights. Before bedtime, 3 g of glycine or placebo were ingested, sleepiness, and fatigue were evaluated using the visual analog scale (VAS) and a questionnaire, and performance were estimated by personal computer (PC) performance test program on the following day. In subjects given glycine, the VAS data showed a significant reduction in fatigue and a tendency toward reduced sleepiness. These observations were also found via the questionnaire, indicating that glycine improves daytime sleepiness and fatigue induced by acute sleep restriction. PC performance test revealed significant improvement in psychomotor vigilance test. We also measured plasma melatonin and the expression of circadian-modulated genes expression in the rat suprachiasmatic nucleus (SCN) to evaluate the effects of glycine on circadian rhythms. Glycine did not show significant effects on plasma melatonin concentrations during either the dark or light period. Moreover, the expression levels of clock genes such as Bmal1 and Per2 remained unchanged. However, we observed a glycine-induced increase in the neuropeptides arginine vasopressin and vasoactive intestinal polypeptide in the light period. Although no alterations in the circadian clock itself were observed, our results indicate that glycine modulated SCN function. Thus, glycine modulates certain neuropeptides in the SCN and this phenomenon may indirectly contribute to improving the occasional sleepiness and fatigue induced by sleep restriction.
The human LT serum. X. The initial form released by T-enriched lymphocytes is 150,000 m.w., associated with small nonlytic components, and can dissociate into the smaller alpha, beta, and gamma m.w. classes. (1981)

The present studies examine the various lymphotoxin (LT) forms released in vitro by phytohemagglutinin- (PHA) activated T-enriched (Te) human peripheral blood lymphocytes. It is clear that Te cells rapidly released (24 to 48 hr) these molecules in vitro. The 1st cell-lytic form detected in these supernatants is a 140-160,000 m.w. molecule(s) termed precursor alpha heavy (P alpha H). This form does not express alpha-LT antigenic determinants but is neutralized by antisera from animals injected with serum-free PHA-activated unseparated lymphocyte supernatants (anti-WS). The P alpha H is converted into alpha H, which expresses alpha determinants, by passage through molecular sieving columns or by treatment with low levels of Nonidet P-40 or urea. These treatments dissociate a small nontoxic 10-20,000 m.w. molecule(s), termed precursor factor (Pf), which masks the alpha-LT determinant on the P alpha H molecule. The dissociation of Pf is reversible, since alpha H from the molecular sieving columns will reassociate with the Pf. The alpha H LT class can further dissociate into the smaller alpha, beta, and gamma LT forms upon chromatography on a molecular sieving column, and a certain small percentage of the alpha H forms appear capable of associating to form the high m.w. complex (Cx) LT class. These findings suggest P alpha H may represent an intermediate that requires additional processing in order to proceed down 1 of 2 pathways: a) formation of complexes that are highly cell-lytic, or b) degradation by dissociation into the smaller weakly cell-lytic molecules identified as LT forms.
Über Pyrazolyl‐lithium‐Verbindungen (1959)

Abstract Die Umsetzung von Pyrazolen und N ‐Alkyl‐pyrazolen mit Phenyllithium oder n‐Butyllithium führt zur Metallierung der 5‐Stellung, sofern diese unsubstituiert ist. Beim 4‐Brom‐pyrazol und seinen Derivaten kann – vorzugsweise mit n‐Butyllithium – ein Halogen‐Metall‐Austausch stattfinden. Weitere reaktionsfähige Stellen scheinen in den untersuchten Pyrazolen nicht vorhanden zu sein.
Bright source of polarization-entangled photons using periodically poled potassium titanyl phosphate (KTP) (2003)

We used two perpendicular crystals of periodically-poled potassium titanyl phosphate (KTP) to efficiently generate frequency-nondegenerate, polarization-entangled photons in a single spatial mode. The source is compact, inexpensive, and suitable for long-distance fiber-based quantum communication.
Reduced uptake of oxidized low density lipoproteins in monocyte-derived macrophages from CD36-deficient subjects. (1995)

To clarify the physiological roles of CD36 as an oxidized low density lipoprotein (OxLDL) receptor, we analyzed the monocyte-derived macrophages from normal and two CD36-deficient subjects, since we identified the molecular abnormalities (Kashiwagi, H., Y. Tomiyama, Y. Kosugi, M. Shiraga, R. H. Lipsky, Y. Kanayama, Y. Kurata, and Y. Matsuzawa 1994. Blood. 83:3545-3552; and Kashiwagi, H., Y. Tomiyama, S. Honda, S. Kosugi, M. Shiraga, N. Nagao, S. Sekiguchi, Y. Kanayama, Y. Kurata, and Y. Matsuzawa. 1995. J. Clin. Invest. 95:1040-1046). Scatchard analysis of 125I-OxLDL binding showed a linear plot and the maximum binding was lower by approximately 40% in the macrophages from subjects with CD36 deficiency than those from normal controls. Competition studies showed that the uptake of 125I-OxLDL was suppressed by OKM5, an antibody against CD36, by 53% in normal control macrophages, but not in the CD36-deficient macrophages. After incubation with OxLDL for 24 h, cholesteryl ester mass accumulation was reduced by approximately 40% in the macrophages from CD36-deficient subjects than those from normal controls. These results suggest that CD36 is one of the physiological receptors for OxLDL. Since specific binding of OxLDL was only reduced by approximately 40% in spite of the complete deficiency of CD36, several other receptors also may have some role in OxLDL uptake. Further studies will be needed to assess the quantitative role of CD36 in foam cell formation in vivo.
Influence of ventilation phase on transthoracic impedance and defibrillation effectiveness (1980)

The influence of the phase of ventilation on the transthoracic impedance and defibrillation success was studied in 6 mongrel dogs. Ventricular fibrillation was induced by a transvenous bipolar catheter electrode. Defibrillation was attempted after 1 min of ventricular fibrillation. The initial stored energy levels were 20 watt-sec for the 1st two shocks, one delivered in inspiration and one in expiration. If the shock at the initial energy level was not successful, the energy level was increased by 10 watt-sec before the next energy level shock. Initial discharge was given at inspiration in half of the animals and at expiration in the other half. The transthoracic impedance to defibrillator discharge was measured with each shock. The study revealed a significantly higher transthoracic impedance with inspiration (76.3 +/- 13 ohms versus 68.4 +/- 12 ohms expiration, p less than 0.01), and a significant decrease in defibrillation success rate when shocks were delivered in inspiration (10%) compared to expiration (50%). The phase of ventilation is an important determinant of transthoracic impedance to defibrillator discharge and has a significant influence on defibrillation effectiveness.
Characterizing gene sets with FuncAssociate (2003)

FuncAssociate is freely accessible at http://llama.med.harvard.edu/Software.html. Source code (in Perl and C) is freely available to academic users 'as is'.
Nanosphere Lithography:  A Versatile Nanofabrication Tool for Studies of Size-Dependent Nanoparticle Optics (2001)

Nanosphere lithography (NSL) is an inexpensive, simple to implement, inherently parallel, high throughput, materials general nanofabrication technique capable of producing an unexpectedly large variety of nanoparticle structures and well-ordered 2D nanoparticle arrays. This article describes our recent efforts to broaden the scope of NSL to include strategies for the fabrication of several new nanoparticle structural motifs and their characterization by atomic force microscopy. NSL has also been demonstrated to be well-suited to the synthesis of size-tunable noble metal nanoparticles in the 20−1000 nm range. This characteristic of NSL has been especially valuable for investigating the fascinating richness of behavior manifested in size-dependent nanoparticle optics. The use of localized surface plasmon resonance (LSPR) spectroscopy to probe the size-tunable optical properties of Ag nanoparticles and their sensitivity to the local, external dielectric environment (viz., the nanoenvironment) is discussed in detail. More specifically, the effects of nanoparticle size, shape, interparticle spacing, nanoparticle-substrate interaction, solvent, dielectric overlayers, and molecular adsorbates on the LSPR spectrum of Ag nanoparticles are presented. This systematic study of the fundamentals of nanoparticle optics promises to find application in the field of chemical and biological nanosensors; herein, the initial data demonstrate that LSPR spectroscopy of Ag nanoparticles can be used to sense specifically bound analytes with zeptomole per nanoparticle detection limits and no detectable nonspecific binding.