gebhart/patrepeval huggingface dataset:
A New and Convenient Wittig-type Reaction for the Preparation of Pyrromethenone Derivative (1993)

Abstract The reaction of 5-(p-toluenesulfonyl)-3,4-disubstituted Δ3-pyrrolin-2-one with aldehydes in the presence of tributylphosphine and 1,8-diazabicyclo[5.3.0]undec-7-ene gave the corresponding 5-exomethylene compounds in good yields. A pyrromethenone derivative as a potential equivalent to C/D ring component of phytochromobilin dimethyl ester was effectively prepared by means of the present method.
Extractive metallurgy of niobium, tantalum, and vanadium (1984)

A comprehensive review is presented of the extractive metallurgy of niobium, tantalum, and vanadium. An account of the various resources of these metals is followed by sections on resource processing, reduction processes, and refining. The review coneludes with a summary of present trends and future projections for each metal.
Calreticulin and Calnexin Interact with Different Protein and Glycan Determinants During the Assembly of MHC Class I (1998)

Before peptide binding, a variety of endoplasmic reticulum (ER) proteins are associated with class I including calnexin, TAP, calreticulin, and tapasin. Although the selective functions of any one of these ER proteins have been difficult to define, individually or in combination they perform two general chaperone functions for class I. They promote assembly of the class I heterotrimeric molecule (heavy (H) chain, beta2m, and peptide) and they retain incompletely assembled complexes in the ER. In this study, we present evidence that calreticulin clearly differs from calnexin in how it associates with class I. Regarding the structural basis of the association, the oligosaccharide moiety in the alpha1 domain and the amino acid residue at position 227 in the alpha3 domain were both found to be critical for the interaction of class I with calreticulin. Interestingly, calreticulin displayed sensitivity to class I peptide binding even in TAP-deficient human or mouse cells. Thus, calreticulin is clearly more specific than calnexin in the structures and conformation of the class I molecule with which it can interact.
A Three-Component Mannich-Type Reaction for Selective Tyrosine Bioconjugation (2004)

A new selective bioconjugation reaction is described for the modification of tyrosine residues on protein substrates. The reaction uses imines formed in situ from aldehydes and electron-rich anilines to modify phenolic side chains through a Mannich-type electrophilic aromatic substitution pathway. The reaction takes place under mild pH and temperature conditions and can modify protein substrates at concentrations as low as 20 muM. Using an efficient fluorescence-based assay, we demonstrated the reaction using a number of aldehydes and protein targets. Importantly, proteins lacking surface-accessible tyrosines remained unmodified. It was also demonstrated that enzymatic activity is preserved under the mild reaction conditions. This strategy represents one of the first carbon-carbon bond-forming reactions for protein modification and provides an important complement to more commonly used lysine- and cysteine-based methods.
Complexes of cyclic 2-oxacarbenes. I. Spontaneous cyclization to form complex of 2-oxacyclopentylidene (1971)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTComplexes of cyclic 2-oxacarbenes. I. Spontaneous cyclization to form complex of 2-oxacyclopentylideneF. A. Cotton and C. M. LukehartCite this: J. Am. Chem. Soc. 1971, 93, 11, 2672–2676Publication Date (Print):June 1, 1971Publication History Published online1 May 2002Published inissue 1 June 1971https://pubs.acs.org/doi/10.1021/ja00740a014https://doi.org/10.1021/ja00740a014research-articleACS PublicationsRequest reuse permissionsArticle Views96Altmetric-Citations58LEARN 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
Novel Antibody Therapeutics Targeting Mesothelin In Solid Tumors (2016)

These antibody therapeutics directed against mesothelin are expected to have different safety profiles, based on their different mechanism of action. Further clinical development will reveal which of these molecules shows the best efficacy and widest therapeutic window and thus is best suited to bring benefit to the patients.
Antiviral and interferon-inducing activities of a new peptidomannan, KS-2, extracted from culture mycelia of Lentinus edodes. (1979)

Oral (PO) administration of KS-2 to adult DDI mice resulted in a peak serum interferon (IF) titer of 800 units (U)/ml 20 hours after administration with detectable levels persisting until 30 hours. After intraperitoneal (IP) injection, a peak serum IF titer of 1,600 U/ml was detected and it followed the same time course as that of oral administration. The IF induced by KS-2 shared certain physico-chemical properties with the standard preparation of immune IF and was not neutralized by an antiserum against type I IF. In mice infected intranasally (IN) with influenza A2 (H2N2) virus, KS-2 was found to possess significant protective activities. Efficacy of the agent was evidenced by an increase in survivor number, a prolongation of mean survival time, an inhibition of the development of lung consolidation induced by the viral infection and a decrease in virus titer in lung tissues. Both PO and IP administrations of KS-2 protected mice against infection and significant antiviral activities were achieved not only by prophylactic but also chemotherapeutic administration. The protective activities of KS-2 against influenza virus infection in mice are discussed in view of the immunopotentiation of the host animals.
Effects of 5-fluorouracil substitution on the RNA conformation and in vitro translation of thymidylate synthase messenger RNA. (1993)

In vitro transcribed thymidylate synthase (TS) mRNA which is 100% substituted with 5-fluorouracil (FUra) was analyzed for changes in mRNA secondary structure, for alterations in translational efficiency, and for evidence of translational miscoding in vitro. FUra substitution in TS mRNA results in an altered migration pattern in non-denaturing RNA gels and in decreased hyperchromicity in RNA melting temperature studies, consistent with a change in mRNA secondary structure. However, no change in the translational efficiency of FUra-substituted TS mRNA is seen compared to control TS mRNA in either rabbit reticulocyte lysate or wheat germ extract in vitro translation systems. Analysis of the in vitro translation product of FUra-substituted TS mRNA by Western immunoblotting, isoelectric focusing, 5-fluoro-2'-deoxyuridine 5'-monophosphate binding, and TS catalytic activity experiments shows no difference compared to control TS mRNA. We conclude that the in vitro translation products of FUra-substituted and control TS mRNA are identical. Our findings do not support the hypothesis that changes in the mRNA template are responsible for the RNA-directed cytotoxicity of FUra.
Transient impedance changes in venous endothelial monolayers as a biological radiation dosimetry response (2012)

Abstract In March of 2011, a magnitude 9.0 earthquake and subsequent 14 meter high tsunami caused major damage to the Fukushima Daiichi nuclear power plant in Japan. The release of radiation, along with other uncontrolled releases elsewhere, revealed the necessity of a portable high throughput minimally invasive biological dosimetry modality. Immediate and early radiation effects on vasculature could be used as a dosimetry modality. To test whether non-coronary vasculature exhibited transient perturbation in barrier function, video microscopy studies and electric cell-substrate impedance sensing (ECIS) technology were used to probe very subtle changes in primary human vascular endothelium. In our studies, human umbilical vein endothelial cell (HUVEC) monolayers exhibited a transient, significant decrease ( p = 0.017) in monolayer resistance three hours after irradiation with 5.0 Gy of γ rays. Radiation induced perturbations in HUVEC monolayer permeability are similar in magnitude and kinetics to those observed in coronary arterial endothelium. Therefore, at least two types of endothelia respond to radiation on ECIS arrays with an early transient disruption in permeability. This finding supports the use of early passage HUVECs for use in bioelectric dosimetry studies of vasculature and suggests that permeability changes in superficial vessels and sequellae could potentially serve as biological dosimetry tools.
Berkeley reliability tools-BERT (1993)

Berkeley reliability tools (BERT) simulates the circuit degradation (drift) due to hot-electron degradation in MOSFETs and bipolar transistors and predicts circuit failure rates due to oxide breakdown and electromigration in CMOS, bipolar, and BiCMOS circuits. With the increasing importance of reliability in today's and future technology, a reliability simulator such as this is expected to serve as the engine of design-for-reliability in a building-in-reliability paradigm. BERT works in conjunction with a circuit simulator such as SPICE in order to simulate reliability for actual circuits, and, like SPICE, acts as an interactive tool for design. BERT is introduced and the current work being done is summarized. BERT is used to study the reliability of a BiCMOS inverter chain, and performance data are presented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Components of the “Metabolic Syndrome” and Incidence of Type 2 Diabetes (2002)

The combination of insulin resistance, dyslipidemia, hypertension, and obesity has been described as a "metabolic syndrome" that is a strong determinant of type 2 diabetes. Factor analysis was used to identify components of this syndrome in 1,918 Pima Indians. Prospective analyses were conducted to evaluate associations of identified factors with incidence of diabetes. Factor analysis identified 4 factors that accounted for 79% of the variance in the original 10 variables. Each of these factors reflected a proposed component of the metabolic syndrome: insulinemia, body size, blood pressure, and lipid metabolism. Among 890 originally nondiabetic participants with follow-up data, 144 developed diabetes in a median follow-up of 4.1 years. The insulinemia factor was strongly associated with diabetes incidence (incidence rate ratio [IRR] for a 1-SD difference in factor scores = 1.81, P < 0.01). The body size and lipids factors also significantly predicted diabetes (IRR 1.52 and 1.37, respectively, P < 0.01 for both), whereas the blood pressure factor did not (IRR 1.11, P = 0.20). Identification of four unique factors with different associations with incidence of diabetes suggests that the correlations among these variables reflect distinct metabolic processes, about which substantial information may be lost in the attempt to combine them into a single entity.
Glucoamylase P gene ofHormoconis resinae: Molecular cloning, sequencing and introduction intoTrichoderma reesei (1992)

The glucoamylase P gene of the fungus Hormoconis resinae has been cloned and sequenced from a genomic library. The gene consists of a 2153-bp protein coding region including three introns. The usual number of introns in cloned fungal glucoamylase genes has been four and in some cases five. Two of the glucoamylase P gene introns contain a sequence resembling the consensus sequence found near the 3' splice site in the introns of the fungus Trichoderma reesei cellobiohydrolase 1 (cbh1) gene. The H. resinae glucoamylase P gene, under its own promoter, was introduced into T. reesei, but no expression could be detected.
Presence of a Single Genotype of the Newly Described Species Mycobacterium immunogenum in Industrial Metalworking Fluids Associated with Hypersensitivity Pneumonitis (2002)

Outbreaks of hypersensitivity pneumonitis (HP) among industrial metal-grinding machinists working with water-based metalworking fluids (MWF) have frequently been associated with high levels of mycobacteria in the MWF, but little is known about these organisms. We collected 107 MWF isolates of mycobacteria from multiple industrial sites where HP had been diagnosed and identified them to the species level by a molecular method (PCR restriction enzyme analysis [PRA]). Their genomic DNA restriction fragment length polymorphism (RFLP) patterns, as determined by pulsed-field gel electrophoresis (PFGE), were compared to those of 15 clinical (patient) isolates of the recently described rapidly growing mycobacterial species Mycobacterium immunogenum. A total of 102 of 107 (95%) MWF isolates (from 10 industrial sites within the United States and Canada) were identified as M. immunogenum and gave PRA patterns identical to those of the clinical isolates. Using genomic DNA, PFGE was performed on 80 of these isolates. According to RFLP analysis using the restriction enzymes DraI and XbaI, 78 of 80 (98%) of the MWF isolates represented a single clone. In contrast, none of the 15 clinical isolates had genetic patterns the same as or closely related to those of any of the others. Given the genomic heterogeneity of clinical isolates of M. immunogenum, the finding that a single genotype was present at all industrial sites is remarkable. This suggests that this genotype possesses unusual features that may relate to its virulence and its potential etiologic role in HP and/or to its resistance to biocides frequently used in MWF.
Hydration dependent studies of highly aligned multilayer lipid membranes by neutron scattering (2010)

We investigated molecular motions on a picosecond timescale of 1,2-dimyristoyl-sn-glycero-3-phosphocholine (DMPC) model membranes as a function of hydration by using elastic and quasielastic neutron scattering. Two different hydrations corresponding to approximately nine and twelve water molecules per lipid were studied, the latter being the fully hydrated state. In our study, we focused on head group motions by using chain deuterated lipids. Information on in-plane and out-of-plane motions could be extracted by using solid supported DMPC multilayers. Our studies confirm and complete former investigations by König et al. [J. Phys. II (France) 2, 1589 (1992)] and Rheinstädter et al. [Phys. Rev. Lett. 101, 248106 (2008)] who described the dynamics of lipid membranes, but did not explore the influence of hydration on the head group dynamics as presented here. From the elastic data, a clear shift of the main phase transition from the P(β) ripple phase to the L(α) liquid phase was observed. Decreasing water content moves the transition temperature to higher temperatures. The quasielastic data permit a closer investigation of the different types of head group motion of the two samples. Two different models are needed to fit the elastic incoherent structure factor and corresponding radii were calculated. The presented data show the strong influence hydration has on the head group mobility of DMPC.
Improving Antibody Binding Affinity and Specificity for Therapeutic Development (2008)

Affinity maturation is an important part of the therapeutic antibody development process as in vivo activity often requires high binding affinity. Here, we describe a targeted approach for affinity improvement of therapeutic antibodies. Sets of CDR residues that are solvent accessible and relatively diverse in natural antibodies are targeted for diversification. Degenerate oligonucleotides are used to generate combinatorial phage-displayed antibody libraries with varying degree of diversity at randomized positions from which high-affinity antibodies can be selected. An advantage of using antibodies for therapy is their exquisite target specificity, which enables selective antigen binding and reduces off-target effects. However, it can be useful, and often it is necessary, to generate cross-reactive antibodies binding to not only the human antigen but also the corresponding non-human primate or rodent orthologs. Such cross-reactive antibodies can be used to validate the therapeutic targeting and examine the safety profile in preclinical animal models before committing to a costly development track. We show how affinity improvement and cross-species binding can be achieved in a one-step process.
Photoreversible reactions of polymers containing cinnamylideneacetate derivatives and the model compounds (1977)

Abstract Photoreversible reactions of 1,4‐butanediol dicinnamylideneacetate(BCA) and its photocyclized compound (BCD), the model compounds for poly(vinyl cinnamylideneacetate), were studied. They exhibited an excellent photoreversibility in a rigid medium at 77°K. The quantum yield of dimerization in the rigid medium is much larger than that in the solution and approximately equal to that in polymer film. Poly(vinyl esters) of substituted cinnamylideneacetic acids also showed photoreversibility to various extents, depending on the substituent. Poly(vinyl α‐cyanocinnamylideneacetate) showed the best photoreversibility among the series, reflecting the least amount of side reaction upon the photodimerization.
Polyadenylate Sequences on Newcastle Disease Virus mRNA Synthesized In Vivo and In Vitro (1974)

Polyadenylate [poly(A)] sequences are associated with the 35 and 50S Newcastle disease virus (NDV)-specific RNAs as well as all six to seven of the 18-22S NDV-specific messenger RNAs extracted from infected chicken embryo cells. The poly(A) associated with the 18-22S RNA has an average size of 120 to 130 nucleotides. The 18-22S RNA synthesized in vitro by NDV's virion-bound polymerase contains six to seven species of the same size and relative proportions as its intracellular counterpart. This in vitro synthesized 18-22S RNA also contains covalently linked poly(A) sequences which, although variable in size, are usually larger and more heterogeneous than those from the infected cell. In vitro RNA synthesis is supported not only by magnesium (at an optimal concentration of mM) but by manganese (at an optimal concentration of 0.5 to 1.0 mM) as well. However, the major product made in the presence of manganese, although sedimenting at 18 to 22S, differs somewhat from the product made in the presence of magnesium.
Laboratory diagnosis of anemia and related diseases using multivariate analysis (1997)

To establish a simple computer program for the laboratory diagnosis of anemia and related diseases, multivariate analyses were applied to the results of routine hematological laboratory tests obtained from 48 patients and 51 healthy volunteers. The patients studied were limited to those who had not been treated hematologically by the time of their first visit to our hospital, and their first data obtained in our laboratory were analyzed. Final diagnoses were aplastic anemia (AA) in 21, myelodysplastic syndrome (MDS) in 14, iron deficiency anemia (IDA) in 3, polycytemia vera (PV)in 3, and idiopathic thrombocytopenic purpura (ITP) in 7. Eight parameters, WBC, RBC, Hb, Ht, MCV, MCH, MCHC, and PLT, were transformed to normal distribution and then applied to principal component analysis to evaluate their independence. Very close relationships were observed between Ht and Hb, and between MCV and MCH. One each of these pairs was selected by discriminant analysis and two sets, RBC, MCH, Hb, PLT, and WBC, and RBC, MCV, Ht, PLT, and WBC, were obtained. Two canonical components gave good discrimination of these five diseases and also of normal subjects. When disease prediction was made using this analysis, 37 of 48 patients (77.1%) were predicted correctly, and furthermore, when two disease predictions were allowed, all patients were diagnosed properly. Some overlaps were observed in this two-dimensional coordinate system, especially of AA and MDS, and also with normal subjects. To improve the system further, the additional parameters of age and sex were added to construct a three-dimensional analysis which resulted in much clearer discrimination. The whole procedure described is being developed with subjects who are not taking medication. Subsequently, the general application of this analytical procedure should be limited to only those not on medications. In conclusion, this is in essence a demonstration project; however, this trial of laboratory diagnosis using routine hematological laboratory results appears to be promising. Further extension of the study by increasing numbers of patients and disorders studied, including secondary anemias, will allow the design of diagnostic software for use with personal computers at the sites of primary care. Am. J. Hematol. 54:108–117, 1997 © 1997 Wiley-Liss Inc.
Method for voltage-sag-source detection by investigating slope of the system trajectory (2003)

A method of determining the voltage-sag-source direction is proposed. The slope of a line fitting two parameters during the disturbance is employed for the detection. A least-squares method is used to perform the line fitting. The voltage-sag-source direction is determined by examining the sign of the slope. The method is verified to be promising by theoretical analysis, simulations and actual field measurements. Simplicity, ease of implementation and robustness are the advantages of the method.
Normal and Abnormal Calcium Homeostasis in Neurons: A Basis for the Pathophysiology of Traumatic and Ischemic Central Nervous System Injury (1996)

Clinical recovery after central nervous system (CNS) trauma or ischemia may be limited by a neural injury process that is triggered and perpetuated at the cellular level, rather than by a lesion amenable to surgical repair. It is widely thought that one such process, a fundamental pathological mechanism initiated by CNS injury, is a disruption of cellular Ca2+ homeostasis. Because of the critical role of Ca2+ ions in regulating innumerable cellular functions, this major homeostatic disturbance is thought to trigger neuronal and axonal degeneration and produce clinical disability. We review those aspects of normal and pathological Ca2+ homeostasis in neurons that relate to neurodegeneration and to the application of neuroprotective strategies for the treatment of CNS injury. In particular, we examine the contribution of Ca(2+)-permeable ionic channels, Ca2+ pumps, intracellular Ca2+ stores, intracellular Ca2+ buffering systems, and the roles of secondary, Ca(2+)-dependent processes in neurodegeneration. A number of hypotheses linking Ca2+ ions and Ca2+ permeable channels to neurotoxicity are discussed with an emphasis on strategies for lessening Ca(2+)-related damage. A number of these strategies may have a future role in the treatment of traumatic and ischemic CNS injury.