gebhart/patrepeval huggingface dataset:
Rituximab resistance and its association with changes in the internal domain of CD20 antigen and down-regulation of pro-apoptotic protein Bax and Bak in both rituximab-resistant cell lines (RRCL) and diffuse large B-cell lymphoma (DLBCL) patient (pt) samples (2006)

17509 Background: Resistance to rituximab (R) has been observed in lymphoma pts. To define the molecular basis for rituximab resistance we developed various RRCL and previously demonstrated changes in CD20 structure, membrane reorganization following rituximab exposure and deregulation of pro-apoptotic proteins Bax/Bak leading to rituximab/chemotherapy resistance. In our current work we evaluated changes in the structure/expression of CD20 and/or pro-apoptotic proteins in primary tumor specimens from DLBCL pts treated with rituximab in combination with CHOP (R-CHOP). Methods: We obtained frozen lymphoid material from patients with DLBCL who achieved a remission (sensitive lymphoma) or failed (resistant lymphoma) R-CHOP therapy. Protein lysates were obtained from each sample. Structural changes in CD20 were determined by Western blotting using various antibodies recognizing epitopes located in the internal (GST77 and 1439) and external domain (rituximab) of CD20. In addition, we studied the expression of Bax and Bak. Results: Variability in the expression and structure of CD20 was found in the pt samples. Rituximab binding to its surface CD20 antigen was preserved in all patients. However, differences in C- and N-terminal expression were found across DLBCL specimens. In addition, down-regulation of Bax/Bak was observed in some pts with resistant lymphomas. Patients who responded to R-CHOP were noted to either have an intact CD20 and/or express Bax/Bak. On the other hand, resistant lymphomas had altered CD20 isoforms and a downregulation of Bax/Bak. Conclusions: Our current preliminary data suggests a positive correlation to our pre-clinical data generated from B-cell NHL cell-lines and will be evaluated in a larger number of primary NHL tumor specimens. No significant financial relationships to disclose.
Ring-closing metathesis in biphasic BMI·PF6ionic liquid/toluene medium: a powerful recyclable and environmentally friendly process (2004)

Biphasic BMI[middle dot]PF(6)/toluene solvent is a remarkably suitable and clean medium for performing olefin metathesis with a new 2nd generation ionic liquid supported-ruthenium catalyst: high levels of recyclability and reusability combined with a high reactivity were obtained with a variety of di- or tri-substituted and/or oxygen-containing dienes, and very low residual ruthenium levels were detected (1 to 22 ppm) in the products.
Identification of Receptor and Heparin Binding Sites in Fibroblast Growth Factor 4 by Structure-Based Mutagenesis (2001)

Fibroblast growth factors (FGFs) comprise a large family of multifunctional, heparin-binding polypeptides that show diverse patterns of interaction with a family of receptors (FGFR1 to -4) that are subject to alternative splicing. FGFR binding specificity is an essential mechanism in the regulation of FGF signaling and is achieved through primary sequence differences among FGFs and FGFRs and through usage of two alternative exons, IIIc and IIIb, for the second half of immunoglobulin-like domain 3 (D3) in FGFRs. While FGF4 binds and activates the IIIc splice forms of FGFR1 to -3 at comparable levels, it shows little activity towards the IIIb splice forms of FGFR1 to -3 as well as towards FGFR4. To begin to explore the structural determinants for this differential affinity, we determined the crystal structure of FGF4 at a 1.8-A resolution. FGF4 adopts a beta-trefoil fold similar to other FGFs. To identify potential receptor and heparin binding sites in FGF4, a ternary FGF4-FGFR1-heparin model was constructed by superimposing the FGF4 structure onto FGF2 in the FGF2-FGFR1-heparin structure. Mutation of several key residues in FGF4, observed to interact with FGFR1 or with heparin in the model, produced ligands with reduced receptor binding and concomitant low mitogenic potential. Based on the modeling and mutational data, we propose that FGF4, like FGF2, but unlike FGF1, engages the betaC'-betaE loop in D3 and thus can differentiate between the IIIc and IIIb splice isoforms of FGFRs for binding. Moreover, we show that FGF4 needs to interact with both the 2-O- and 6-O-sulfates in heparin to exert its optimal biological activity.
Delay tolerant network based e-mail system using trains (2012)

DTN protocol can overcome network problems such as intermittent connectivity, long or variable delay, asymmetric data rates, and high error rates. TCP/IP protocol, a common network protocol currently used for the internet, cannot handle these problems.
Short-channel-effect-suppressed sub-0.1-μm grooved-gate MOSFET's with W gate (1995)

Grooved-gate Si MOSFET's with tungsten gates are fabricated using conventional manufacturing technologies, and their short-channel-effect-free characteristics are verified down to a source and drain separation of around 0.1 /spl mu/m. Phase shift lithography followed by a side-wall oxide film formation technique achieves a spacing of less than 0.2 /spl mu/m between adjacent elevated polysilicons, subsequently resulting in a sub-0.1-/spl mu/m source and drain separation in the substrate. Short-channel effects, such as threshold voltage roll-off and punchthrough, are found to be completely suppressed. From device simulations, the potential barrier formed at each grooved-gate corner is considered to be responsible for the suppression of the short-channel effects.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Binary Vectors and Super-binary Vectors (2006)

A binary vector is a standard tool in the transformation of higher plants mediated by Agrobacterium tumefaciens. It is composed of the borders of T-DNA, multiple cloning sites, replication functions for Escherichia coli and A. tumefaciens, selectable marker genes, reporter genes, and other accessory elements that can improve the efficiency of and/or give further capability to the system. A super-binary vector carries additional virulence genes from a Ti plasmid, and exhibits very high frequency of transformation, which is valuable for recalcitrant plants such as cereals. A number of useful vectors are widely circulated. Whereas vectors with compatible selectable markers and convenient cloning sites are usually the top criteria when inserting gene fragments shorter than 15 kb, the capability of maintaining a large DNA piece is more important for consideration when introducing DNA fragments larger than 15 kb. Because no vector is perfect for every project, it is recommended that modification or construction of vectors should be made according to the objective of the experiments. Existing vectors serve as good sources of components.
Induction of Cytotoxic T-Lymphocytes and Antitumor Activity by a Liposomal Lipopeptide Vaccine (2008)

We have previously described a simple yet effective liposome-based therapeutic vaccine, DOTAP/E7, which contains only two molecules, the cationic lipid DOTAP and a peptide antigen derived from the E7 oncoprotein of human papillomavirus (HPV) type 16. In the current report, we have improved the vaccine formulation by incorporation of E7-lipopeptide instead of the water-soluble native E7 peptide into the DOTAP liposome. The lipopeptide consists of an N-terminal alpha- or -palmitoyl lysine connected to the E7 peptide via a dipeptide Ser-Ser linker. The DOTAP/E7-lipopeptide vaccine exhibited an enhanced functional antigen-specific CD8 (+) T lymphocyte response in vivo compared to the previous DOTAP/E7 formulation. More importantly, the cytotoxic T cells induced by the DOTAP/E7-lipopeptide vaccine could efficiently eliminate an existing HPV positive TC-1 tumor. The antitumor activity of lipopeptide formulated in DOTAP liposome was more than twice as potent as that of native E7, likely owing to the increased peptide entrapment efficiency in the liposomal complex. Our results also showed that it is essential to have the dipeptide spacer sequence between E7 peptide and the attached fatty acid to achieve a full immune response. Overall, the improved DOTAP/E7-lipopeptide vaccine described herein showed a significantly enhanced therapeutic effect for the treatment of a cervical cancer model.
Obstructive sleep apnea-hypopnea syndrome: Etiology and diagnosis (2012)

Sleep disordered breathing is a common chronic condition in the general population. This review will highlight the prevalence of different types of sleep apnea in general and obstructive type in particular in the United States and Middle East. Despite the extensive research studies on the sleep apnea pathogenesis, the exact mechanism is not well known. Obesity, however, is the leading risk factor to upper airway narrowing and obstruction and main contributor to the escalating prevalence of morbidity worldwide including the Arab countries. Due to the serious consequences of the untreated sleep disordered breathing, this article will emphasize on the importance of early recognition, key clinical manifestations, and how to treat and prevent the disease.
Direct Brønsted Analysis of the Restoration of Activity to a Mutant Enzyme by Exogenous Amines (1989)

A true Brønsted analysis of proton transfer in an enzyme mechanism is made possible by the chemical rescue of an inactive mutant of aspartate aminotransferase, where the endogenous general base, Lys258, is replaced with Ala by site-directed mutagenesis. Catalytic activity is restored to this inactive mutant by exogenous amines. The eleven amines studied generate a Brønsted correlation with beta of 0.4 for the transamination of cysteine sulfinate, when steric effects are included in the regression analysis. Localized mutagenesis thus allows the classical Brønsted analysis of transition-state structure to be applied to enzyme-catalyzed reactions.
Mutations that uncouple the beta-adrenergic receptor from Gs and increase agonist affinity. (1987)

The deletion of residues 239-272 from the hamster beta-adrenergic receptor resulted in a loss of the ability of the receptor, expressed in mouse L cells, to stimulate adenylate cyclase (Dixon, R. A. F., Sigal, I. S., Rands, E., Register, R. B., Candelore, M. R., Blake, A. D., and Strader, C. D. (1987) Nature 326, 73-77). This mutant receptor (D(239-272)beta AR) bound the agonist isoproterenol with a single class of binding sites, in contrast to the wild-type beta-adrenergic receptor, which exhibited two classes of agonist affinity sites. We now report that the affinity of D(239-272)beta AR for isoproterenol is relatively insensitive to detergent solubilization or to treatment with either GTP or NaF, indicating the absence of a receptor-Gs interaction. Whereas deletions within the region of amino acids 229-258 did not reduce the ability of the receptor to couple to Gs or to stimulate adenylate cyclase, the deletion of either of the regions 222-229 or 258-270 resulted in receptors which were unable to couple to Gs. The affinities of D(222-229)beta AR, D(239-272)beta AR, and D(258-270)beta AR toward isoproterenol were greater than that observed for the low affinity, uncoupled form of the wild-type receptor. These results suggest a role for the regions of the beta-adrenergic receptor encompassing amino acids 222-229 and 258-270, which are predicted to form amphiphilic helices, in the agonist-promoted activation of Gs.
Lack of association between early childhood immunizations and beta-cell autoimmunity. (1999)

The results suggest that changing the early childhood immunization schedule would not affect the risk of developing beta-cell autoimmunity or type 1 diabetes.
3′‐Fluoro‐3′‐deoxyribonucleoside 5′‐triphosphates: Synthesis and use as terminators of RNA biosynthesis (1989)

3'-Fluoro-3'-deoxy-uridine, -cytidine, -adenosine and -guanosine have been synthesized by glycosylation of the corresponding silylated bases with 1-O-acetyl-2,5-di-O-benzoyl-3-fluoro-3-deoxy-D-ribofuranose in the presence of Friedel-Crafts catalysts and were converted to the 5'-triphosphates, NTP(3'-F). It was shown that NTP(3'-F) are terminators of RNA synthesis catalyzed by DNA-dependent RNA polymerase from E. coli and may thus serve as tools for DNA sequencing.
Sympathetic skin response: review of the method and its clinical use. (2004)

Sympathetic skin response (SSR) represents a potential generated in skin sweat glands; it originates by activation of the reflex arch with different kinds of stimuli. The potential of rapid habituation after repeated stimuli is formed by biphasic or triphasic slow wave activity with relatively stable latency and variable amplitude. In healthy subjects younger than 60 years of age the response is always present in all extremities. SSR is most frequently used in diagnosing the functional impairment of non-myelinated postganglionic sudomotor sympathetic fibers in peripheral neuropathies. In this study a more complex and informative view on the anatomical and physiological substrates of SSR, its character, normal values and technique are presented, focusing on problems in evaluation of the response and factors that have influence on it. Based on personal experience normative latency and amplitude values of SSR in a group of 20 healthy individuals (x +/- SD), upper extremities: 1.48 +/- 0.80 sec., 444 +/- 167 microV, respectively; lower extremities: 2.06 +/- 0.93 sec., 203 +/- 87.4 microV, respectively) and recommendations for qualitative evaluation preference--the presence or absence of the response--over quantitative evaluation of latency and amplitude of the response in practical clinical use of the method are presented. (Tab. 1, Fig. 2, Ref. 148.).
Single-stranded DNA as a target for triple helix formation (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSingle-stranded DNA as a target for triple helix formationCarine Giovannangeli, Therese Montenay-Garestier, Michel Rougee, Marcel Chassignol, Nguyen T. Thuong, and Claude HeleneCite this: J. Am. Chem. Soc. 1991, 113, 20, 7775–7777Publication Date (Print):September 1, 1991Publication History Published online1 May 2002Published inissue 1 September 1991https://pubs.acs.org/doi/10.1021/ja00020a058https://doi.org/10.1021/ja00020a058research-articleACS PublicationsRequest reuse permissionsArticle Views178Altmetric-Citations80LEARN 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
Simple fabrication of micro/nano-porous SiOC foam from polysiloxane (2012)

Micro/nano-porous SiOC foams with narrow pore size distribution were fabricated by pyrolysis of polymeric gels prepared from mixtures of crosslinkable polysiloxane PSO and methyl-terminated polydimethylsiloxane PDMS. By simply changing the viscosity of the PDMS or its mass ratio in the mixed polymers, the pore sizes and porosities of the porous SiOC materials could be adjusted in the range from 10 nm to 3 μm, and 20% to 90%, respectively.
Cisplatin, vinblastine, and bleomycin combination therapy in resistant gestational trophoblastic disease (1986)

Eleven patients were treated with cisplatin, vinblastine, and bleomycin (PVB) combination chemotherapy after failure of conventional triple-agent therapy with methotrexate, dactinomycin, and cyclophosphamide for gestational trophoblastic disease. Of ten evaluable patients, five (50%) achieved negative titers. Sustained remission was achieved in only two patients (20%). Major hematologic toxicities and two deaths due to sepsis occurred in this group of patients. Although this combination does exhibit activity, its clinical use in the treatment of refractory trophoblastic disease is limited.
Epidemic cholera in Latin America (1992)

Reprint requests to Epidemiology Section, Enteric Diseases Branch, Division of Bacterial and Mycotic Diseases, National Center for Infectious Diseases, Mailstop C09, Centers for Disease Control, Atlanta, GA 30333 (Dr Tauxe).
A Bragg grating-tuned fiber laser strain sensor system (1993)

The development of a fiber laser sensor system which permits efficient interrogation of Bragg grating sensors is reported. A tunable erbium doped fiber laser which utilizes a broadband mirror and an intracore Bragg grating reflector in side-pump configuration is described. The wavelength of the laser oscillation is determined by the Bragg grating, which is remotely located and used as a strain sensor. This arrangement is used in conjunction with a passive wavelength demodulation system (WDS) to form a self-contained fiber laser strain sensor system, allowing efficient interrogation of the Bragg sensor. This device provides interrupt-immune sensing of static and dynamic strains with a bandwidth of 13.0 kHz.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Initiation of Glycogen Synthesis in Yeast (1996)

The self-glucosylating proteins, Glg1p and Glg2p, are required for glycogen synthesis in Saccharomyces cerevisiae (Cheng, C., Mu., J., Farkas, I., Huang, D., Goebl M. G., and Roach, P. J. (1995) Mol. Cell. Biol. 15, 6632-6640). Glg2p was shown to be associated with carbohydrate in vivo and was released from the high molecular weight glycogen fraction by treatment with alpha-amylase. In addition, some Glg2p exists as a protein of Mr approximately 43,000, whose proportion is increased in cells lacking glycogen synthase. Unlike the mammalian counterpart, glycogenin, the yeast Glg proteins appear to require multiple Tyr residues for functionality. In Glg2p, mutation of both Tyr230 and Tyr232 is necessary to suppress self-glucosylation of purified protein in vitro. The mutant protein is still capable of transferring glucose to an exogeneous acceptor, n-dodecyl beta-D-maltoside. A small COOH-terminal region, conserved between Glg1p and Glg2p, is also important for function; mutation of Tyr367 or truncation at residue 362 impairs the ability of primed Glg2p to be elongated by glycogen synthase. Complete suppression of glycogen accumulation in vivo requires mutation of all three Tyr residues. In Glg1p, two Tyr residues are implicated, Tyr232 and Tyr600, mutation of both being required to eliminate glycogen accumulation in vivo.
Synthesis of Glyco(lipo)peptides by Liposome-Mediated Native Chemical Ligation (2006)

Although native chemical ligation (NCL) is emerging as a powerful method for the assembly of (glyco)peptide building blocks, its applicability is reduced when peptide segments are poorly soluble in aqueous buffer. We have found that incorporating reactants in liposomes allows NCL of lipophilic peptides and lipopeptides. Furthermore, the reaction rates of liposome-mediated NCL are higher than traditional reaction conditions resulting in improved yields. [reaction: see text]
Effect of Weak Magnetic Field on Arsenate and Arsenite Removal from Water by Zerovalent Iron: An XAFS Investigation (2014)

In this study, a weak magnetic field (WMF), superimposed with a permanent magnet, was utilized to improve ZVI corrosion and thereby enhance As(V)/As(III) removal by ZVI at pHini 3.0-9.0. The experiment with real arsenic-bearing groundwater revealed that WMF could greatly improve arsenic removal by ZVI even in the presence of various cations and anions. The WMF-induced improvement in As(V)/As(III) removal by ZVI should be primarily associated with accelerated ZVI corrosion, as evidenced by the pH variation, Fe(2+) release, and the formation of corrosion products as characterized with X-ray absorption fine structure spectroscopy. The arsenic species analysis in solution/solid phases at pHini 3.0 revealed that As(III) oxidation to As(V) in aqueous phase preceded its subsequent sequestration by the newly formed iron (hydr)oxides. However, both As(V) adsorption following As(III) oxidation to As(V) in solution and As(III) adsorption preceding its conversion to As(V) in solid phase were observed at pHini 5.0-9.0. The application of WMF accelerated the transformation of As(III) to As(V) in both aqueous and solid phases at pHini 5.0-9.0 and enhanced the oxidation of As(III) to As(V) in solution at pHini 3.0.
Bioluminescence screening in vitro (Bio-Siv) assays for high-volume antimycobacterial drug discovery (1996)

Bioluminescence-based assays to indicate antimicrobial susceptibility have been developed and validated for recombinant strains of Mycobacterium tuberculosis, Mycobacterium bovis BCG, Mycobacterium avium, and Mycobacterium intracellulare expressing an integrated eukaryotic luciferase gene. MICs determined with these bioluminescence assays for several antimycobacterial agents, including isoniazid, ethambutol, rifampin, amikacin, streptomycin, ciprofloxacin, and clarithromycin, compared favorably with traditional BACTEC methods and visual estimations of the inhibitory end point. Assay methodology has been optimized for the analysis of large numbers of novel compounds and is simple, inexpensive, and labor efficient. The availability of these four recombinant mycobacteria has permitted a strategy for drug discovery employing the nonpathogenic BCG strain for mass screening purposes with subsequent confirmation of activity against the pathogenic mycobacteria. Furthermore, evidence suggests that the BCG-based screen may allow the direct identification of bactericidal agents.
Cost-of-illness studies in chronic ulcers: a systematic review (2017)

There was large variability in study methods, perspectives, cost components and jurisdictions, making interpretation of costs difficult. Nevertheless, it appears that the cost for the treatment of chronic ulcers is substantial and greater attention needs to be made for preventive measures.
Nucleotide Sequence of the 3'-Terminal Region of Clover Yellow Mosaic Virus RNA (1989)

The nucleotide sequence of the 3'-terminal region of clover yellow mosaic virus RNA determined from cDNA clones contains one major open reading frame (ORF) encoding a protein with an Mr of 28,093 (28.1 K). A smaller ORF, in frame with the major one, is also present and encodes a 23.5K protein which is similar in size to the capsid protein of the virus and has several sequence similarities with the coat proteins of four other potexviruses. The smaller ORF is probably used for the expression of the coat protein because the capsid subgenomic mRNA probably does not include the AUG of the 28.1K protein. Comparison of the amino acid sequences of the coat proteins of five potexviruses revealed a large number of identical and conservative replacements of amino acid residues.
The synthesis of deuterium, carbon‐14, and carrier‐free tritium labeled cannabinoids (1975)

Abstract 1′,2′‐Dehydroolivetol and its monomethyl ether, 5′‐bromoolivetol, and olivetol‐5,‐ 2 H 3 , have been synthesized. Acid catalyzed condensation of the latter three compounds with p ‐mentha‐2,8‐dien‐1‐ol gave 1′,2′‐dehydro‐Δ 8 ‐THC methyl ether, 5′‐bromo‐Δ 8 ‐THC, and Δ 9 ‐THC‐5′‐ 2 H 3 , respectively. 5′‐Bromo‐Δ 8 ‐THC served as a precursor of 4′,5′‐dehydro‐Δ 8 ‐ and Δ 8 ‐THC, 4′‐ and 5′‐hydroxy‐Δ 8 ‐THC, 5′‐dimethylamino‐Δ 8 ‐THC and 5′‐carboxy‐Δ 8 ‐THC. Reduction of 4′,5′‐dehydro‐Δ 8 ‐ and Δ 9 ‐THC in the presence of homogeneous catalysts afforded tritium labeled Δ 8 ‐THC (50 Ci/mmole) and Δ 9 ‐THC (58 Ci/mmole), respectively. Syntheses of Δ 9 ‐THC‐11‐ 2 H 3 , Δ 9 ‐THC‐11‐ 14 C cannabinol‐5,‐ 2 H 3 ′ and other labeled cannabinoids are described.