gebhart/patrepeval huggingface dataset:
The transcriptional start site for a human U6 small nuclear RNA gene is dictated by a compound promoter element consisting of the PSE and the TATA box (1992)

Transcription of vertebrate U6 snRNA genes by RNA polymerase III requires two sequence elements in the proximal promoter region: the PSE (proximal sequence element, found in snRNA promoters transcribed by RNA polymerase II) and the TATA element (found in many mRNA promoters). The locations of the PSE and the TATA box are important determinants for transcriptional start site selection in their respective RNA polymerase II promoters. In vertebrate U6 genes the PSE and the TATA elements are located in approximately the same positions as in the polymerase II transcribed genes, but their respective roles in initiation site selection are unknown. We have analyzed the effects of spacing changes between the PSE and the TATA element, and between the two elements and the normal U6 start site on human U6 gene transcription. The spacing requirement between the two elements is highly stringent, implying a possible interaction between the factors that bind them. Our results discount the possibility that the location of either the PSE or the TATA element, by itself, dictates efficient selection of a transcriptional start site. Instead, we suggest that the two elements form a compound promoter element whose location dictates the start site of transcription from the human U6 gene promoter.
Structure of an antifreeze polypeptide precursor from the sea raven, Hemitripterus americanus. (1986)

The cystine-rich antifreeze polypeptides (AFP) from sea raven were fractionated by reverse-phase high performance liquid chromatography into several components, with SR2 (Mr 17,000) as the major AFP. Sea raven AFP cDNA clones were isolated from a liver cDNA library using a synthetic oligonucleotide, and the identity of one of the clones, C2-1, was confirmed by hybridization selection and cell-free translation. C2-1 encodes a pre-AFP of 195 amino acids with no evidence of any profragments. Comparison of the deduced amino acid sequence with partial peptide sequences from SR2 showed substitutions in at least four amino acid positions, suggesting that C2-1 cDNA codes for a minor component. Both the primary and the predicted secondary structures of sea raven AFP are completely different from those of other fish AFP. This further confirms that sea raven AFP belongs to a different class of antifreezes. The high frequency of reverse turns and the presence of paired hydrophilic amino acids in these structures are striking features of the protein and may contribute to their antifreeze action.
Phylogeny of proteolipid proteins: divergence, constraints, and the evolution of novel functions in myelination and neuroprotection (2008)

The protein composition of myelin in the central nervous system (CNS) has changed at the evolutionary transition from fish to tetrapods, when a lipid-associated transmembrane-tetraspan (proteolipid protein, PLP) replaced an adhesion protein of the immunoglobulin superfamily (P0) as the most abundant constituent. Here, we review major steps of proteolipid evolution. Three paralog proteolipids (PLP/DM20/DMalpha, M6B/DMgamma and the neuronal glycoprotein M6A/DMbeta) exist in vertebrates from cartilaginous fish to mammals, and one (M6/CG7540) can be traced in invertebrate bilaterians including the planktonic copepod Calanus finmarchicus that possess a functional myelin equivalent. In fish, DMalpha and DMgamma are coexpressed in oligodendrocytes but are not major myelin components. PLP emerged at the root of tetrapods by the acquisition of an enlarged cytoplasmic loop in the evolutionary older DMalpha/DM20. Transgenic experiments in mice suggest that this loop enhances the incorporation of PLP into myelin. The evolutionary recruitment of PLP as the major myelin protein provided oligodendrocytes with the competence to support long-term axonal integrity. We suggest that the molecular shift from P0 to PLP also correlates with the concentration of adhesive forces at the radial component, and that the new balance between membrane adhesion and dynamics was favorable for CNS myelination.
Two better cell lines for making hybridomas expressing specific T cell receptors. (1989)

Two variants of the AKR thymoma BW5147 have been isolated which can no longer express functional TCR alpha- and beta-chains. By generating hybridomas with these variant fusion lines, TCR of any normal T lymphocyte, including TCR-gamma/delta, can be studied at a clonal level, without interference of the BW5147-derived receptor chains. In this study one of the variants has been useful in identifying the reactivity to allogeneic MHC Ag of BW5147 itself.
The Use of Biologic Therapies in the Treatment of Rheumatoid Arthritis (2014)

The use of biologic agents has revolutionized the management of rheumatoid arthritis (RA) in the past two decades. These biologic agents directly target molecules and cells involved in the pathogenesis of RA. Biologic agents indeed lead to a better prognosis and clinical remission in patients with RA, especially in patients who are not well-controlled with traditional disease-modifying anti-rheumatic drugs (DMARDs). Currently, five TNF inhibitors (infliximab, etanercept, adalimumab, golimumab and certolizumab pegol), an IL-6 receptor antagonist (tocilizumab), an IL-1 receptor antagonist (anakinra), a B cell depleting agent (rituximab) and a T cell co-stimulation inhibitor (abatacept) have been approved for the treatment of RA. With the increased understanding of the pathogenic mechanisms of RA and advantages in manufacturing biotechnology of pharmaceutical companies, a series of novel biologic therapeutic approaches are being developed. In the present paper, we will summarize the biologic agents currently available to treat RA, and the prospective biologic therapies that might be used in the management of RA in future.
Measuring longitudinal displacements using laser beam diffraction changes near the focal point (1993)

A nanometer displacement probe is created by using a knife edge, a two-part-divided photodiode, and high quality lenses. The laser beam, of wavelength 780 nm, is focused on the sample surface, where the image formed of the beam is read by the photodiode through the same optical path. The displacement signal is found to originate from the diffracted image change at the surface. A dynamic range of 2 μm and a minimal resolution of 1 nm for a lens of f=3.6 mm are obtained. The difference current, when normalized by the summation current, becomes a function of displacement and is independent of the sample surface reflectivity. As an application, a piezoceramic piece having a mean roughness of 1.03 μm was used. The frequency characteristics measured by this mechanical displacement method and the conventional electric oscillation measurement method were compared and found to be in good agreement.
Minireview: Natriuretic Peptides during Development of the Fetal Heart and Circulation (2003)

Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are cardiac hormones, secreted by the atria and ventricles, respectively, in the normal adult heart. They participate in the regulation of blood pressure and body fluid homeostasis and modify growth and development of cardiovascular tissues and bone. Levels of ANP are higher in the fetal circulation than in adults, and fetal ventricles express higher levels of ANP and BNP than adult ventricles. The reappearance of ventricular ANP expression in adults is recognized as a marker of the induction of the embryonic gene program in ventricular hypertrophy. The natriuretic peptide system appears to be functional by midgestation, to respond to volume stimuli, and to regulate blood pressure and salt and water balance in the developing embryo. In addition, the natriuretic peptides may help regulate the blood supply to the fetus, acting as vasodilators in the placental vasculature. Peaks of ANP and BNP expression during gestation coincide with significant events in cardiac organogenesis, suggesting a role for ANP/BNP in the formation of the heart. In knockout mice lacking the natriuretic peptide receptor (NPR)-A gene (Npr1(-/-)), survival is reduced, with hearts enlarged at birth and possible cardiac developmental abnormalities. Surviving adult Npr1(-/-) mice have elevated blood pressure and marked cardiac hypertrophy and fibrosis, indicating that the ANP/BNP system is an important regulator of myocyte growth during development.
Mitigation of growth of laser initiated surface damage in fused silica using a 4.6-micron wavelength laser (2006)

Surface damage caused by high fluence, 351 nm light to fused silica optics can adversely affect the performance of fusion class laser systems like that of the National Ignition Facility (NIF). It is typically initiated as a small pit and grows in both diameter and depth during normal operation with cracks that extend into the bulk. Mitigation of this growth has been previously reported using a 10.6 micron CO<sub>2</sub> laser. Here, we report growth mitigation with the 4.6 micron light from a frequency-doubled, 9.2 micron CO<sub>2</sub> laser. The motivation for using 4.6 microns is >25 times longer absorption length in fused silica at room temperature compared to that at 10.6 micron. Mitigation of subsurface cracks at 10.6 micron required ablation of material to the depth of the cracks. In contrast, it was possible to mitigate the subsurface cracks using 4.6 micron light without significant ablation of material. Damage sites as large as 500 microns in diameter with cracks extending to 200 microns in depth were successfully mitigated with 4.6 microns.
2-Aralkynyl and 2-Heteroalkynyl Derivatives of Adenosine-5'-N-Ethyluronamide as Selective A2a Adenosine Receptor Agonists (1995)

A series of new 2-aralkynyl and 2-heteroaralkynyl derivatives of NECA were synthesized and studied in binding and functional assays to assess their potency for the A2a compared to A1 adenosine receptors. Compounds bearing an aromatic or heteroaromatic ring, conjugated to the triple bond, showed generally weaker activity at the A2a receptor and lower selectivity (A2a vs A1) than the alkylakynyl derivatives previously reported. However, the (4-formylphenyl)-ethynyl derivative 17 showed affinity in the low nanomolar range and high selectivity (about 160-fold) for the A2a receptor. The presence of heteroatoms improved vasorelaxant activity, the 2-thiazolylethynyl derivative 30 being the most potent in the series. Introduction of methylene groups between the triple bond and the phenyl ring favored the A2a binding affinity, and the 5-phenyl-1-pentynyl derivative 24 was found to be highly potent and selective (about 180-fold) at A2a receptors. With regard to antiplatelet activity, the presence of aromatic or heteroaromatic rings decreased potency in comparison with that of NECA and of N-ethyl-1'-deoxy-1'-(6-amino-2-hexynyl-9H-purin-9-yl)-beta-D-ribofura nuronamide (HENECA). Introduction of a methylene group was effective in increasing antiaggregatory potency only when this group is linked to a heteroatom (31-35). From these data and those previously reported, the structure-activity relationships derived for the 2-alkynyl-substituted ribose uronamides would indicate that potentiation of A2a receptor affinity could be obtained by aromatic rings not conjugated with the triple bond or by heteroaromatic groups. As for A2a receptors on platelets, the presence of aromatic rings, either conjugated or unconjugated to the triple bond, is detrimental for the antiaggregatory activity. However, the introduction of polar groups alpha to the triple bond strongly increases the potency when steric hindrance is avoided. Some of the compounds included in this series retain interesting vasodilating properties and merit further investigation for their potential in the treatment of cardiovascular disorders.
Cationic lipids used in non-viral gene delivery systems (2007)

To perform gene transfer two types of vectors are available, (i) viral vectors (ii) nonviral vectors. Among the vectors, nonviral vectors have proved less toxic and safe compare to viral vectors through clinical trials. No single vector is proved suitable for every gene transfection experiment. Cationic lipids are experimentally established as non-viral vector with higher transfection efficiency. Identifying the barriers for transfection and the possible solutions, stability improvement research is needed for better clinical performance of cationic vectors. The newly described liposomal preparation, Liposomes- Protamine-DNA (LPD), has shown superiority over conventional Liposomes-DNA complexes (lipoplexes). In future it is also possible to find new conjugates as cationic lipids bearing many properties, suitable to bound with DNA and penetrate cell. Considering all these properties, these works reviews the most recent studies highlighting cationic lipids used in nonviral gene delivery systems.

	 

	Key words: Gene therapy, non-viral, lipids, cation, delivery systems.
Caffeic acid phenethyl ester‐induced PC‐3 cell apoptosis is caspase‐dependent and mediated through the loss of inhibitors of apoptosis proteins (2004)

CAPE is an effective inhibitor of NF-kappaB activation in PC-3 cells, but the mechanism of apoptosis, and the corresponding loss of IAP expression, is caspase-dependent.
A Simple Method to Estimate Entropy and Free Energy of Atmospheric Gases from Their Action (2019)

A convenient practical model for accurately estimating the total entropy (Σ<i>S</i><sub>i</sub>) of atmospheric gases based on physical action is proposed. This realistic approach is fully consistent with statistical mechanics, but reinterprets its partition functions as measures of translational, rotational, and vibrational action or quantum states, to estimate the entropy. With all kinds of molecular action expressed as logarithmic functions, the total heat required for warming a chemical system from 0 K (Σ<i>S</i><sub>i</sub><i>T</i>) to a given temperature and pressure can be computed, yielding results identical with published experimental third law values of entropy. All thermodynamic properties of gases including entropy, enthalpy, Gibbs energy, and Helmholtz energy are directly estimated using simple algorithms based on simple molecular and physical properties, without resource to tables of standard values; both free energies are measures of quantum field states and of minimal statistical degeneracy, decreasing with temperature and declining density. We propose that this more realistic approach has heuristic value for thermodynamic computation of atmospheric profiles, based on steady state heat flows equilibrating with gravity. Potentially, this application of an action principle can provide better understanding of emergent properties of many natural or evolving complex systems, including modelling of predictions for global warming.
EXE: A system for automatically generating inputs of death using symbolic execution (2006)

Radio tomographic imaging (RTI) is a technology for target localization by using radiofrequency (RF) sensors in a wireless network. The change of the attenuation field caused by thetarget is represented by a shadowing image, which is then used to estimate the target's position.The shadowing image can be reconstructed from the variation of the received signal strength (RSS)in the wireless network. However, due to the interference from multi-path fading, not all the RSSvariations are reliable. If the unreliable RSS variations are used for image reconstruction, someartifacts will appear in the shadowing image, which may cause the target's position being wronglyestimated. Due to the sparse property of the shadowing image, sparse Bayesian learning (SBL) canbe employed for signal reconstruction. Aiming at enhancing the robustness to multipath fading,this paper explores the Laplace prior to characterize the shadowing image under the frameworkof SBL. Bayesian modeling, Bayesian inference and the fast algorithm are presented to achieve themaximum-a-posterior (MAP) solution. Finally, imaging, localization and tracking experiments fromthree different scenarios are conducted to validate the robustness to multipath fading. Meanwhile,the improved computational efficiency of using Laplace prior is validated in the localization-timeexperiment as well.
Regenerating mammalian nerve fibres: changes in action potential waveform and firing characteristics following blockage of potassium conductance (1982)

Extracellular application of potassium channel blocking agents is known to increase the amplitude and duration of the compound action potential in non-myelinated and demyelinated axons, but not in mature mammalian myelinated fibres. In the present study we used intra-axonal and whole nerve recording techniques to study the effects of the potassium channel blocking agent 4-aminopyridine (4-AP) on regenerating rat nerve fibres. Our results indicate that early regenerating (premyelinated) axons show considerable broadening of the action potential after 4-AP application and late regenerating (myelinated) axons give rise to burst activity following a single stimulus after 4-AP application. 4-AP did not affect spike waveform or firing properties of normal mature sciatic nerve fibres. These results demonstrate the importance of potassium conductance in stabilizing firing properties of myelinated regenerating axons.
Thermoradiation inactivation of naturally occurring organisms in soil (1973)

Samples of soil collected from Kennedy Space Center near spacecraft assembly facilities were found to contain microorganisms very resistant to conventional sterilization techniques. The inactivation behavior of the naturally occurring spores in soil was investigated using dry heat and ionizing radiation, first separately, then in combination. Dry heat inactivation rates of spores were determined for 105 and 125 C. Radiation inactivation rates were determined for dose rates of 660 and 76 krad/hr at 25 C. Simultaneous combinations of heat and radiation were then investigated at 105, 110, 115, 120, and 125 C. Combined treatment was found to be highly synergistic requiring greatly reduced radiation doses to accomplish sterilization.
Photochemistry of diaryliodonium salts (1990)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPhotochemistry of diaryliodonium saltsJohn L. Dektar and Nigel P. HackerCite this: J. Org. Chem. 1990, 55, 2, 639–647Publication Date (Print):January 1, 1990Publication History Published online1 May 2002Published inissue 1 January 1990https://pubs.acs.org/doi/10.1021/jo00289a045https://doi.org/10.1021/jo00289a045research-articleACS PublicationsRequest reuse permissionsArticle Views2858Altmetric-Citations182LEARN 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 InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
An immunohistologic evaluation of C-erbB-2 gene product in patients with urinary bladder carcinoma (1992)

The results suggest that the c-erbB-2 gene product could be a tumor marker to identify a malignant subgroup in bladder carcinomas.
A critical assessment of the Wilhelmy method in studying lung surfactants. (1979)

1. The surface properties of over 250 films of diplamitoyl lecithin (DPL) and Tween 20 on distilled water have been investigated using two different surface balances simultaneously, the Wilhelmy balance, popular in physiological studies, and the Du Nuoy ring method whose readings are independent of contact angle. 2. Using concentrations of DPL ranging from 0.08 to 1.90 microgram cm-2 on a Langmuir trough where the pool area was cycled from 100 to 27.5% of maximum, the Wilhelmy balance registered virtually the same force per wetted perimeter as the ring method for both pure water and Tween 20, but appreciably lower values for DPL over the whole cycle. 3. The above differences can be explained on the basis of a significant (45-70 degrees) contact angle, a surface property also demonstrated photographically and by direct measurement. 4. Contact angle was shown to vary with pool area, a relationship exhibiting hysteresis. 5. This study indicates that the Wilhelmy balance has been an unfortunate choice of instrument for studying DPL films whose surface tensions are appreciably higher than previously estimated.
Synthesis of 2‘-Substituted 4-Bromo-2,4‘-bithiazoles by Regioselective Cross-Coupling Reactions (2002)

The synthesis of the title compounds (1) was achieved in two steps starting from readily available 2,4-dibromothiazole (2). In a regioselective Pd(0)-catalyzed cross-coupling step, compound 2 was converted into a variety of 2-substituted 4-bromothiazoles 3 (10 examples, 65-85% yield). Alkyl and aryl zinc halides were employed as nucleophiles to introduce an alkyl or aryl substituent. The Sonogashira protocol was followed to achieve an alkynyl-debromination. Bromo-lithium exchange at carbon atom C-4 and subsequent transmetalation to zinc or tin converted the 4-bromothiazoles 3 into carbon nucleophiles which underwent a second regioselective cross-coupling with another equivalent of 2,4-dibromothiazole (2). The Negishi cross-coupling gave high yields of the 2'-alkyl-4-bromo-2,4'-bithiazoles 1a-g (88-97%). The synthesis of the 2'-phenyl- and 2'-alkynyl-4-bromo-2,4'-bithiazoles 1h-j required a Stille cross-coupling that did not proceed as smoothly as the Negishi cross-coupling (58-62% yield). The title compounds which were accessible in total yields of 38-82% are versatile building blocks for the synthesis of 2,4'-bithiazoles.
The technology of chemical glass strengthening : A review (2010)

The methods of chemical strengthening for improving the mechanical properties of oxide glasses are reviewed. Chemical strengthening in compared with thermal strengthening and different methods of m ...
Vaccination with pure Mycobacterium leprae proteins inhibits M. leprae multiplication in mouse footpads (1994)

In this study, we evaluated vaccination with a number of purified, as well as recombinant, Mycobacterium leprae proteins for protective efficacy in mice. BALB/c mice were immunized intradermally with various native somatic (purified) or recombinant M. leprae proteins and their synthetic polypeptides emulsified in Freund's incomplete adjuvant. The protective efficacy of these preparations was assessed by enumeration of bacilli in the footpads of mice challenged with viable M. leprae 1 to 2 months following immunization. Protection was afforded by the purified and recombinant 10-kDa M. leprae cytoplasmic heat shock protein, the recombinant cell wall-associated 65-kDa M. leprae heat shock protein, and to a lesser extent, the purified 28-kDa M. leprae cytoplasmic protein (superoxide dismutase). Vaccination with either the purified or recombinant 35-kDa M. leprae cell membrane protein, the synthetic 27-amino-acid N-terminal peptide of the 10-kDa protein, the recombinant 18-kDa M. leprae protein, or the purified 22-kDa cell membrane protein was ineffective. When the interval between immunization and challenge was increased to 6 months, the purified 10-kDa M. leprae protein and the recombinant 65-kDa M. leprae protein lost vaccine efficacy, while a sodium dodecyl sulfate-soluble protein fraction of the M. leprae cell wall (soluble proteins), as had been found previously, continued to protect, suggesting that multiple M. leprae protein epitopes are critical for solid vaccine protection.