gebhart/patrepeval huggingface dataset:
Inactivation of key metabolic enzymes by mixed-function oxidation reactions: Possible implication in protein turnover and ageing (1983)

Several mixed-function oxidation systems catalyze the inactivation of Escherichia coli glutamine synthetase. Inactivation involves modification of a single histidine residue in each enzyme subunit and makes the enzyme susceptible to proteolytic degradation. We show here that 10 key enzymes in metabolism are inactivated by a bacterial NADH oxidase and by an oxidase system comprised of NADPH, cytochrome P-450 reductase, and cytochrome P-450 isozyme 2 from rabbit liver microsomes. Most of the inactivatable enzymes require a divalent cation for activity and all but one (enolase) possess a nucleotide binding site. Glutamine synthetase, pyruvate kinase, and phosphoglycerate kinase are protected from inactivation by their substrates; substrate protection of other enzymes was not tested. We propose that inactivation involves mixed-function oxidization system-catalyzed synthesis of H(2)O(2) and reduction of Fe(III) to Fe(II) followed by oxidation of enzyme-bound Fe(II) by H(2)O(2) to generate oxygen radicals that attack a histidine (or other oxidizable amino acid) at the metal binding site of the enzyme. This is supported by the following: (i) most of the inactivation reactions are inhibited by EDTA and by catalase, (ii) both mixed-function oxidation systems reduce Fe(III), and (iii) H(2)O(2) together with Fe(II) catalyzes nonenzymic inactivation of glutamine synthetase. In view of the fact that inactivation of glutamine synthetase makes it susceptible to proteolytic degradation, it is possible that mixed-function oxidation system-catalyzed inactivation of enzymes is a regulatory step in enzyme turn-over. In addition, the implication of oxidative inactivation reactions in ageing is suggested by the fact that many of the enzymes inactivated by mixed-function oxidation systems are known to accumulate as inactive forms during ageing.
Gene delivery to human chondrocytes by an adeno associated virus vector. (2000)

AAV vector could be useful for direct gene delivery to chondrocytes in situ.
Spark SQL (2015)

Spark SQL is a new module in Apache Spark that integrates relational processing with Spark's functional programming API. Built on our experience with Shark, Spark SQL lets Spark programmers leverage the benefits of relational processing (e.g. declarative queries and optimized storage), and lets SQL users call complex analytics libraries in Spark (e.g. machine learning). Compared to previous systems, Spark SQL makes two main additions. First, it offers much tighter integration between relational and procedural processing, through a declarative DataFrame API that integrates with procedural Spark code. Second, it includes a highly extensible optimizer, Catalyst, built using features of the Scala programming language, that makes it easy to add composable rules, control code generation, and define extension points. Using Catalyst, we have built a variety of features (e.g. schema inference for JSON, machine learning types, and query federation to external databases) tailored for the complex needs of modern data analysis. We see Spark SQL as an evolution of both SQL-on-Spark and of Spark itself, offering richer APIs and optimizations while keeping the benefits of the Spark programming model.
Extension and source/drain design for high-performance finFET devices (2003)

Double gate devices based upon the FinFET architecture are fabricated, with gate lengths as small as 30 nm. Particular attention is given to minimizing the parasitic series resistance. Angled extension implants and selective silicon epitaxy are investigated as methods for minimizing parasitic resistance in FinFETs. Using these two techniques high performance devices are fabricated with on-currents comparable to fully optimized bulk silicon technologies. The influence of fin thickness on device resistance and short channel effects is discussed in detail. Devices are fabricated with fins oriented in the <100> and <100> directions showing different transport properties.
Hierarchical Markov Random Fields for mast cell segmentation in electron microscopic recordings (2011)

We present a hierarchical Markov Random Field (HMRF) for multi-label image segmentation. With such a hierarchical model, we can incorporate global knowledge into our segmentation algorithm. Solving the MRF is formulated as a MAX-SUM problem for which there exist efficient solvers based on linear programming. We show that our method allows for automatic segmentation of mast cells and their cell organelles from 2D electron microscopic recordings. The presented HMRF outperforms classical MRFs as well as local classification approaches wrt. pixelwise segmentation accuracy. Additionally, the resulting segmentations are much more consistent regarding the region compactness.
Role of Toll-Like Receptor 4 in the Proinflammatory Response to Vibrio cholerae O1 El Tor Strains Deficient in Production of Cholera Toxin and Accessory Toxins (2005)

Following intranasal inoculation, Vibrio cholerae KFV101 (DeltactxAB DeltahapA DeltahlyA DeltartxA) colonizes and stimulates tumor necrosis factor alpha and interleukin 1beta (IL-1beta) in mice, similar to what occurs with isogenic strain P4 (DeltactxAB), but is less virulent and stimulates reduced levels of IL-6, demonstrating a role for accessory toxins in pathogenesis. Morbidity is enhanced in C3H/HeJ mice, indicating that Toll-like receptor 4 is important for infection containment.
Peanut agglutinin in combination with CD19 monoclonal antibody has potential as a purging agent in myeloma. (1991)

Administration of high-dose chemotherapy to patients with myeloma, followed by rescue with autologous bone marrow transplantation (ABMT), sometimes induces complete disease remission but relapse is usual. We have attempted to reduce the risk of relapse by selective in vitro removal of myeloma cells from the autologous graft. A combination of the (gal-galNac)-binding lectin peanut agglutinin (PNA), which binds all plasma cells, and the pan-B monoclonal antibody CD19 was assessed for purging marrow of myeloma cells and their putative precursors using a magnetic bead method. Preliminary experiments performed on peripheral blood mononuclear cells spiked with fluorescent-labeled PNA+ Kirk tumor cells showed that a magnetic bead: target cell ratio of 40:1 resulted in a greater than 3-log reduction in PNA+ cells. This technique was then applied to 17 samples of myeloma bone marrow and to 18 samples of normal bone marrow spiked with PNA+ Kirk cells and CD19+ hairy cell leukemia cells. In each case all detectable plasma cells and CD19+ lymphocytes were effectively removed, and normal hemopoietic progenitor cell recovery was greater than 55%. This purging system deserves further study as a means of reducing relapse rates in myeloma patients treated by a combination of high-dose chemotherapy and ABMT.
DNA technology in chip construction (1993)

The use of photolithography of produce 3 nm features sounds like a pipe dream. But is it? The circuit size achievable with X‐ray lithography cannot be pushed below 0.25 μm due to limiting lens technology. Now it has been shown that the genetic material DNA can be used to form micro‐photomasks with features 100 times smaller than those on current silicon chips. The construction of nucleic and networks, their conversion into electron‐conducting networks, and their use in photolithography are described.
Structural elucidation of alfalfa root saponins by mass spectrometry and nuclear magnetic resonance analysis (1988)

Structures of saponins may be fully elucidated using a combination of n.m.r. and m.s. instead of the usual degradation techniques. Well resolved proton n.m.r. spectra and chromatographic separation can be obtained from peracetylated mixtures of saponins. Under these conditions, genins are identified mainly by 13C n.m.r. spectroscopy; sugars and their points of attachment are determined by examining 1H chemical shifts and coupling constants following assignments made by 2D COSY and relayed COSY experiments. Sugar chains are sequenced by observing intersugar connectivities through long-range couplings (delayed COSY) or n.o.e. Alternatively, the use of Californium plasma desorption m.s. provides quasimolecular ions and fragments corresponding to the sequential rupture of the chain of sugars. Free carboxylic acids are located on an acetylated saponin by looking at the disappearance, in the presence of Eu complexes, of the carbon situated α to the carbonyl in the 13C n.m.r. spectrum. The above methods have been employed to determine the structures of the seven major saponins of alfalfa root, which are allegedly responsible for the antifeedant properties of the vegetable.
Synthesis and reactions of a poly(methacrylate) from an optically active amino alcohol (1998)

Synthesis and radical polymerization of a novel optically active methacrylate, (S)–2–tert–butoxycarbonylamino–3–phenylpropyl methacrylate (MA–F–BOC), were examined. MA–F–BOC was synthesized from methacrylic acid and N–protected (L)–phenylalaninol. Radical polymerization of MA–F–BOC quantitatively afforded the corresponding polymethacrylate with a relatively high molecular weight. Radical copolymerizations of MA–F–BOC were carried out with styrene and acrylamide to afford the copolymers. Radical polymerization of MA–F–BOC in the presence of n–butanethiol afforded the oligomers, whose degrees of polymerizations were 3.3–8.0. The BOC group was completely cloven with HBr to afford the corresponding optically active polymeric amine quantitatively. © 1998 John Wiley & Sons, Inc. J. Polym. Sci. A Polym. Chem. 36: 1981–1986, 1998
Silicon interposer with TSVs (Through Silicon Vias) and fine multilayer wiring (2008)

In order to achieve high density and high performance package, through silicon vias (TSVs) technology has been desired. Our purpose is the development of silicon interposer which has TSVs and fine multilayer Cu wiring on both side. Since silicon substrate has a quite flat and smooth surface, it can be expected to form fine wiring such as global layer of device. Furthermore, silicon interposer can be expected to show high reliability of bump connection for the reason of the same coefficient of thermal expansion (CTE) with silicon devices. In this paper, elemental technologies such as interconnection of TSV, fabrication of fine wiring, and evaluation of interlayer dielectric are reported. Finally, the application of silicon interposer such as silicon module and inorganic-organic hybrid substrate, are described. As further evolution systems, a substrate with micro channel and substrate less package are proposed.
Effects of nano-particles on the tribological and thermal properties of piston ring-cylinder liner (2004)

The effects of ultra-dispersed diamond (UDD) on the friction force, wear, and temperature of tri-bological pairs have been investigated. The experimental tests were carried out on a modified piston ring-cylinder liner bench tester with different particle mass fractions of 0, 0.02%, and 0.10%. The results show that compared with a pure fluid, the mixture of the fluid and UDD not only reduces the friction and wear, but also reduces the bulk temperature of the specimen. The mechanism by which the UDD lubricant improves the tribological properties has some relationship with surface topography, because it can increase the bearing capability of surfaces.
ChemInform Abstract: Long‐Range Electron Transfer in Donor (Spacer) Acceptor Molecules and Proteins (1991)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Evaluation of RGD-Targeted Albumin Carriers for Specific Delivery of Auristatin E to Tumor Blood Vessels (2006)

Induction of apoptosis in endothelial cells is considered an attractive strategy to therapeutically interfere with a solid tumor's blood supply. In the present paper, we constructed cytotoxic conjugates that specifically target angiogenic endothelial cells, thus preventing typical side effects of apoptosis-inducing drugs. For this purpose, we conjugated the potent antimitotic agent monomethyl-auristatin-E (MMAE) via a lysosomal cleavable linker to human serum albumin (HSA) and further equipped this drug-albumin conjugate with cyclic c(RGDfK) peptides for multivalent interaction with alphavbeta3-integrin. The RGD-peptides were conjugated via either an extended poly(ethylene glycol) linker or a short alkyl linker. The resulting drug-targeting conjugates RGDPEG-MMAE-HSA and RGD-MMAE-HSA demonstrated high binding affinity and specificity for alphavbeta3-integrin expressing human umbilical vein endothelial cells (HUVEC). Both types of conjugates were internalized by endothelial cells and killed the target cells at low nM concentrations. Furthermore, we observed RGD-dependent binding of the conjugates to C26 carcinoma. Upon i.v. administration to C26-tumor bearing mice, both drug-targeting conjugates displayed excellent tumor homing properties. Our results demonstrate that RGD-modified albumins are suitable carriers for cell selective intracellular delivery of cytotoxic compounds, and further studies will be conducted to assess the antivascular and tumor inhibitory potential of RGDPEG-MMAE-HSA and RGD-MMAE-HSA.
Remote evaluation (1990)

A new technique for computer-to-computer communication is presented that can increase the performance of distributed systems. This technique, called remote evaluation, lets one computer send another computer a request in the form of a program. A computer that receives such a request executes the program in the request and returns the results to the sending computer. Remote evaluation provides a new degree of flexibility in the design of distributed systems. In present distributed systems that use remote procedure calls, server computers are designed to offer a fixed set of services. In a system that uses remote evaluation, server computers are more properly viewed as programmable processors. One consequence of this flexibility is that remote evaluation can reduce the amount of communication that is required to accomplish a given task. In this paper we discuss the semantics of remote evaluation and its effect on distributed system design. We also summarize our experience with a prototype implementation.
Crucial role of FOXP3 in the development and function of human CD25+CD4+ regulatory T cells (2004)

Naturally occurring CD25(+)CD4(+) regulatory T cells are engaged in the maintenance of immunological self-tolerance and down-regulation of various immune responses. Recent studies with mice showed that Foxp3, which encodes the transcription factor Scurfin, is a master regulatory gene for the development and function of CD25(+)CD4(+) regulatory T cells. Here we examined the role of FOXP3 in human CD25(+)CD4(+) regulatory T cells. The FOXP3 gene and its protein product were preferentially expressed in peripheral CD25(+)CD4(+) T cells, in particular CD25(+)CD45RO(+)CD4(+) T cells in normal individuals and, interestingly, in some human T cell leukemia virus type 1-infected T cell lines, which constitutively express CD25. TCR stimulation of CD25(-)CD45RO(-)CD4(+) naive T cells failed to elicit FOXP3 expression at the gene or protein level. Ex vivo retroviral gene transfer of FOXP3, on the other hand, converted peripheral CD25(-)CD45RO(-)CD4(+) naive T cells into a regulatory T cell phenotype similar to CD25(+)CD4(+) regulatory T cells. For example, FOXP3-transduced T cells exhibited impaired proliferation and production of cytokines including IL-2 and IL-10 upon TCR stimulation, up-regulated the expression of regulatory T cell-associated molecules such as CD25 and CTL-associated antigen-4 and suppressed in vitro proliferation of other T cells in a cell-cell contact-dependent manner. Thus, human FOXP3 is a crucial regulatory gene for the development and function of CD25(+)CD4(+) regulatory T cells, and can be used as their reliable marker. Furthermore, regulatory T cells de novo produced from normal naive T cells by FOXP3 transduction can be instrumental for treatment of autoimmune/inflammatory diseases and negative control of various immune responses.
Test of the virulence and live-vaccine efficacy of auxotrophic and galE derivatives of Salmonella choleraesuis (1987)

Aromatic compound-dependent (aro) derivatives of three mouse-virulent strains of Salmonella choleraesuis (Salmonella cholerae-suis) were constructed and shown to be nonvirulent for mice (intraperitoneal [i.p.] 50% lethal dose [LD50], greater than 5 X 10(6) CFU). A pur derivative, and a thy derivative, each of a different virulent parent, remained moderately virulent (i.p. LD50S for BALB/c mice, ca. 10(5) and 5 X 10(4) CFU, respectively). Tested as live vaccines i.p., the aro strains were ineffective in salmonella-susceptible BALB/c and C57BL/6 mice but were somewhat effective in salmonella-resistant CBA/J mice and in outbred CD-1 mice. The pur and thy strains were effective as live vaccines in BALB/c mice when given in sublethal doses. Two previously isolated nonvirulent galE derivatives of S. choleraesuis (i.p. LD50 in BALB/c mice, greater than 10(6) CFU) were also ineffective as live vaccines in BALB/c and C57BL/6 mice. The main antigenic difference between S. choleraesuis (O-6,7) and S. typhimurium (O-4,12) is in O-antigen character, thought to largely determine the specificity of protection in salmonellosis. Paired, nearly isogenic O-6,7 and O-4,12 derivatives were constructed from an aro S. typhimurium strain of proven efficacy as a live vaccine. Used as live vaccines, the O-4,12 member protected BALB/c mice against challenge with virulent S. typhimurium, whereas the O-6,7 member did not protect against virulent S. choleraesuis. However, BALB/c mice vaccinated with the O-6,7 member and mice vaccinated with an aro S. choleraesuis strain were protected against challenge with a moderately virulent (LD50, 5 X 10(4) CFU) O-6,7 derivative of an S. typhimurium strain.
A Comparison of Current Broadcast Amplitude-Modulation Techniques (1975)

From the beinning, plate moduladon has been the dominant method of modulation used in commercial amplitude-modulation (AM) broadcast transmitters. Recently, however, alternate modulation schemes have been employed in commercial transmitters in growing numbers, namely, pulse-duration modulation (PDM), modified Doherty, and modified Chireix (Ampliphase). This paper discusses traditional plate modulation and compares it, critically, to the newer methods being employed. Performance parameters and economic factors of each of the systems are reviewed and compared. A tutorial approach is used.
Multifunctionalization of Dendrimers through Orthogonal Transformations (2007)

Abstract A straightforward methodology for the synthesis of multifunctionalized dendrimers that is based on an orthogonal functionalization strategy has been developed. Polyamide‐based dendrimers that possess both a single aldehyde and a single azide moiety on their periphery have been synthesized by using a convergent synthetic strategy. These dendrimers can be functionalized quantitatively with small organic and biological molecules that contain hydrazide and/or alkyne groups in which each functional moiety is completely specific for its complementary motif. This orthogonal functionalization strategy has the potential to be used to synthesize multifunctional dendrimers for a variety of applications, which range from targeted biological delivery vehicles to optical materials.
Replication and Extension of P50 Findings in Schizophrenia (1991)

In a paired click "conditioning (S1), Testing (S2)" paradigm the amplitudes of responses to (S1) as well as the degree of attenuation of S2 as compared to S1 (S2/S1) were studied in two schizophrenic groups. Thirteen undifferentiated/disorganized (US) and thirteen paranoid (PS) patients were compared to thirteen age and sex matched normal volunteers. The US patients had significantly lower (S1) response amplitudes (P less than 0.001), as well as degree of attenuation of the response to (S2) (P less than 0.001) than the other two groups. No significant differences were found between the PS and N groups. Our data replicates the prior finding of decreased attenuation of the amplitude of the P50 wave in a paired click paradigm in schizophrenia. In addition, we showed that this phenomenon is significant mainly in the disorganized/undifferentiated patients as compared to the paranoid schizophrenics.
Identification and precursor frequency analysis of a common T cell epitope motif in mitochondrial autoantigens in primary biliary cirrhosis. (1998)

The immunodominant antimitochondrial antibody response in patients with primary biliary cirrhosis (PBC) is directed against the E2 component of the pyruvate dehydrogenase complex (PDC-E2). Based on our earlier observations regarding peripheral blood mononuclear cell (PBMC) T cell epitopes, we reasoned that a comparative analysis of the precursor frequencies of PDC-E2 163-176-specific T cells isolated from PBMC, regional hepatic lymph nodes, and from the liver of PBC patients would provide insight regarding the role of T cells in PBC. Results showed a disease-specific 100-150-fold increase in the precursor frequency of PDC-E2 163-176-specific T cells in the hilar lymph nodes and liver when compared with PBMC from PBC patients. Interestingly, autoreactive T cells and autoantibodies from PBC patients both recognize the same dominant epitope. In addition, we demonstrated cross-reactivity of PDC-E2 peptide 163-176-specific T cell clones with PDC-E2 peptide 36-49 and OGDC-E2 peptide 100-113 thereby identifying a common T cell epitope "motif" ExETDK. The peptide 163-176-specific T cell clones also reacted with purified native PDC-E2, suggesting that this epitope is not a cryptic determinant. These data provide evidence for a major role for PDC-E2 peptide 163-176 and/or peptides bearing a similar motif in the pathogenesis of PBC.
Different promoter usage and multiple transcription initiation sites of the interleukin‐1 receptor‐related human ST2 gene in UT‐7 and TM12 cells (1999)

The ST2 gene encodes receptor-like molecules that are very similar to the type I interleukin-1 receptor. Two distinct types of the ST2 gene products, ST2 (a soluble secreted form) and ST2L (a transmembrane form) are produced by alternative splicing. Here we demonstrate that the human ST2 gene has two alternative promoters followed by distinct noncoding first exons, which are located more than 8 kb apart and are spliced to the common exon 2 containing the translation initiation site. Within 1001 bp upstream of the transcription initiation site of the cloned distal promoter, there are four GATA-1. The main promoter used for the expression of the ST2 gene in UT-7, a human leukaemic cell line, is distinct from that in TM12, a human fibroblastic cell line. Although UT-7 cells use both distal and proximal promoters, the distal promoter is used dominantly for expression of both ST2 and ST2L mRNA. On the other hand, almost all transcription in TM12 cells starts from the proximal promoter. These results contrast with those of former studies on the rat system, in which ST2 and ST2L mRNA were generated by use of the proximal and distal promoters, respectively. Furthermore, UT-7 cells use multiple transcription initiation sites in both the proximal and distal promoters, whereas the transcription of the ST2 gene in TM12 cells starts at a unique site. Intriguingly, these results suggest that ST2 and ST2L proteins have distinct functions in different cells within different biological systems, such as those of growth control, differentiation and immunological responses.