gebhart/patrepeval huggingface dataset:
Helicase-deficient cysteine to glycine substitution mutants of Escherichia coli replication protein PriA retain single-stranded DNA-dependent ATPase activity. Zn2+ stimulation of mutant PriA helicase and primosome assembly activities. (1993)

The PriA replication protein of Escherichia coli guides the ordered assembly of the primosome, the mobile, multiprotein, bidirectional, DNA replication priming/helicase complex of which it is an integral part. Although the PriA protein is not essential for viability, primosome assembly via a PriA-dependent pathway is required for normal cellular replication and growth. The PriA protein itself is multifunctional. In addition to its role in directing primosome assembly, PriA is a site-specific, single-stranded DNA-dependent ATPase (dATPase) and a 3'-->5' DNA translocase and helicase. In an attempt to assess how each individual PriA activity is related to the others (i.e. can one activity function independently of the others or are they intrinsically coupled?), a series of site-directed mutations within priA have been created. priA encodes a cysteine-rich motif, the sequence of which suggests that this region of the protein may be involved in metal binding. Biochemical characterization of three purified cysteine to glycine substitution mutant PriA proteins revealed that these mutant proteins retained their site-specific single-stranded DNA-dependent ATPase activity. However, two of the three mutant proteins were completely incapable of any helicase activity. Residual helicase activity of the third mutant PriA protein could be stimulated 3-fold by the presence of low concentrations of Zn2+ ions. Primosomes assembled with the mutant PriA proteins were also defective in both their ability to act as bidirectional helicase complexes, as well as their ability to synthesize primers for extension by the DNA polymerase III holoenzyme. The results presented here suggest that the cysteine-rich region of PriA is indeed involved in metal binding and that single cysteine to glycine substitutions within this region result in the uncoupling of the ATPase activity of PriA from both its helicase activity and its ability to interact correctly with the DNA template and the six other primosomal proteins.
Local Administration of Interleukin-11 Ameliorates Intestinal Radiation Injury in Rats (2007)

Intestinal radiation injury is dose limiting during abdominal and pelvic radiotherapy and critical for the outcome after accidental whole-body radiation exposure. The multifunctional cytokine, interleukin-11 (IL-11), ameliorates the intestinal radiation response, but its clinical use is hampered by severe toxicity after systemic administration. This study addressed whether protection against intestinal radiation injury can be achieved by intraluminal administration of IL-11. Male rats underwent surgical transposition of a 4-cm small bowel loop to the scrotum. For repeated intraluminal drug administration, an ileostomy, proximal to the bowel loop in the scrotum, was created. The transposed intestinal loop was exposed to 5 Gy fractions on 9 consecutive days. Recombinant human IL-11 (rhIL-11; 2 mg/kg/d) or vehicle was given through the ileostomy from 2 days before until 2 weeks after irradiation. At 2 weeks, structural, cellular, and molecular aspects of intestinal radiation injury were assessed. rhIL-11 ameliorated structural manifestations of radiation enteropathy, including radiation injury score (6.5 +/- 0.6 in the vehicle group versus 4.0 +/- 0.3 in the IL-11 group; P = 0.001), mucosal surface area loss (0.2 +/- 0.1 versus 0.5 +/- 0.03; P < 0.0001), and intestinal wall thickening (842 +/- 66 microm versus 643 +/- 54 microm; P = 0.02), reduced postradiation transforming growth factor-beta overexpression, and reduced numbers of ED2-positive cells. Postirradiation mucosal mast cell numbers were partially restored by rhIL-11. These data show that local administration of rhIL-11 ameliorates early intestinal radiation injury and support further development of rhIL-11 to reduce manifestations of intestinal radiation injury in the clinic.
From ions in solution to ions in the gas phase - the mechanism of electrospray mass spectrometry (1993)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTFrom ions in solution to ions in the gas phase - the mechanism of electrospray mass spectrometryPaul Kebarle and Liang TangCite this: Anal. Chem. 1993, 65, 22, 972A–986APublication Date (Print):November 15, 1993Publication History Published online22 September 2008Published inissue 15 November 1993https://pubs.acs.org/doi/10.1021/ac00070a001https://doi.org/10.1021/ac00070a001research-articleACS PublicationsRequest reuse permissionsArticle Views6983Altmetric-Citations440LEARN 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
Encoding complex diffractive optical elements onto a phase-only liquid-crystal spatial light modulator (2001)

This PDF contains the communication section including Encoding complex diffractive optical elements onto a phase-only liquid-crystal spatial light modulator.
Phosphororganische Verbindungen, XII. Phosphinoxyde als Olefinierungsreagenzien (1958)

Abstract Phosphinoxyde mit einer zum Phosphor nachbarständigen Methylengruppe enthalten aktiven Wasserstoff und setzen sich in Gegenwart geeigneter Kondensationsmittel mit einigen Ketonen zu Olefinen und Phosphinsäuren um.
Laser imprint reduction with a short shaping laser pulse incident upon a foam-plastic target (2002)

In the previous work [Metzler et al., Phys. Plasmas 6, 3283 (1999)] it was shown that a tailored density profile could be very effective in smoothing out the laser beam nonuniformities imprinted into a laser-accelerated target. However, a target with a smoothly graded density is difficult to manufacture. A method of dynamically producing a graded density profile with a short “shaping” laser pulse irradiating a foam layer on top of the payload prior to the drive pulse is proposed. It is demonstrated that the intensity and the duration of the shaping pulse, the time interval between the shaping pulse and the drive pulse, and the density ratio between the foam and the payload can be selected so that the laser imprint of the drive pulse is considerably suppressed without increasing the entropy of the payload. The use of the foam-plastic target and a shaping pulse reduces the imprinted mass perturbation amplitude by more than an order of magnitude compared to a solid plastic target. The requirements to the smoothing of the drive and “shaping” laser beams and to the surface finish of the foam-plastic sandwich target are discussed.
Zeolite Chemistry (1989)

A novel chemistry is described for the substitution of iron and/or titanium for aluminum in a number of zeolite frameworks. The reaction of zeolites with an aqueous solution of the ammonium fluoride salt of the metal under relatively mild conditions yields zeolites that are dealuminated, contain substantial quantities of either iron or titanium and are essentially free of defect structure.
Vascular endothelial growth factor administration in chronic myocardial ischemia (1996)

Vascular endothelial growth factor (VEGF) is a potent mitogen capable of stimulating angiogenesis. We examined the effect of VEGF administration in a model of chronic porcine myocardial ischemia. Nineteen pigs were instrumented with proximal left circumflex coronary artery (LCX) Ameroid constrictors. In eight animals VEGF (2 microgram) with heparin (50 U) was administered extraluminally to the LCX myocardium with an osmotic pump for 4 wk and 11 other animals served as controls. VEGF-treated animals demonstrated higher flow in the LCX territory during both rest and pacing compared with untreated controls (rest: 1.35 +/- 0.1 vs. 0.80 +/- 0.09 ml.min-1.g-1; pacing; 2.01 +/- 0.37 vs. 1.01 +/- 0.07 ml.min-1.g-1, P < 0.05, VEGF vs. controls). The observed improvement in regional coronary flow in VEGF-treated animals resulted in better preservation of endothelium-dependent microvessel relaxation as well as fractional LV shortening in the LCX territory during pacing in the VEGF-treated than in control animals (controls: 7.1 +/ 2.6 vs. 3.6 +/- 2.0%, rest vs. pacing; VEGF: 6.9 +/- 2.9 vs. 6.3 +/- 2.9%, rest vs. pacing). We conclude that VEGF administration in a gradual coronary occlusion model in pigs results in improvement of coronary flow and preservation of regional hemodynamics in the compromised myocardium.
Association of the high-affinity receptor for IgG (Fc gamma RI) with the gamma subunit of the IgE receptor. (1993)

How receptors for the Fc portion of IgG antibodies (Fc gamma R) trigger a variety of immune functions by clustering upon engagement of ligand is largely unknown. Of the three distinct classes of human Fc gamma R, only Fc gamma RIIIA has been shown to associate with a potential signal-generating subunit, either the gamma chain or the zeta chain. With these studies we show that Fc gamma RI, the high-affinity receptor for IgG, also is found in association with gamma chain. This association can be demonstrated by using anti-Fc gamma RI antibodies, Fc gamma RI ligand, and anti-gamma-chain antibodies that coadsorb the proteins from detergent lysates of Fc gamma RI-expressing cells. The association of Fc gamma RI and gamma chain can be reconstituted by cotransfection of cDNAs for both proteins into COS cells.
A browsing method for image database on the microfilm library devices (2003)

A microfilm retrieval system was developed. The system has the following features: browsing, interfacing of the ISDN (integrated services digital network), networking between the microfilm and a computer and easy operation using a mouse. The contents of many books and materials have been copied into the microfilm retrieval system already. The retrieval system can be used for long distance access. It has a multimedia database structure.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Iterative Learning Control of Antilock Braking of Electric and Hybrid Vehicles (2005)

Hybrid electric vehicles (HEVs) use multiple sources of power for propulsion which provides great ease and flexibility to achieve advanced controllability and additional driving performance. In this paper, the electric motor in HEV and electric vehicle (EV) propulsion systems is used to achieve antilock braking performance without a conventional antilock braking system (ABS). The paper illustrates that the antilock braking of HEV can be easily achieved using iterative learning control for various road conditions. A vehicle model, a slip ratio model, and a vehicle speed observer were developed to control the antilock performance of HEV during braking. Through iterative learning process, the motor torque is optimized to keep the tire slip ratio corresponding to the peak traction coefficient during braking. Simulations were performed on a compact size vehicle to validate the proposed control method. The control algorithm proposed in this paper may also be used for the ABS control of conventional vehicles.
A Prospective Natural-History Study of Coronary Atherosclerosis (2011)

In patients who presented with an acute coronary syndrome and underwent percutaneous coronary intervention, major adverse cardiovascular events occurring during follow-up were equally attributable to recurrence at the site of culprit lesions and to nonculprit lesions. Although nonculprit lesions that were responsible for unanticipated events were frequently angiographically mild, most were thin-cap fibroatheromas or were characterized by a large plaque burden, a small luminal area, or some combination of these characteristics, as determined by gray-scale and radiofrequency intravascular ultrasonography. (Funded by Abbott Vascular and Volcano; ClinicalTrials.gov number, NCT00180466.).
Photochemical Formation of Silver Nanoparticles in Poly(N-vinylpyrrolidone) (1996)

Silver nanoparticles have been prepared by photoreduction of silver nitrate with 254 nm UV light in the presence of poly(N-vinylpyrrolidone). The effects of PVP concentration on the particle size, the UV−vis absorption peak, and the rate of the photoreduction process were studied. The average particle size ranged from 15.2 to 22.4 nm, with the corresponding UV−vis absorption peak position at 404−418 nm in 1−0.25 wt % PVP. The rate of the photoreduction process was observed to increase with the PVP concentration. X-ray photoelectron spectroscopic studies further revealed that the polymer interacts with silver particles through the oxygen atom in the >CO group. A negative shift of binding energy in the Ag 3d5/2 for silver nanoparticles was observed.
Phylogenetic Analysis and Assessment of the Genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas Deduced from Small-Subunit rRNA Sequences (1994)

We sequenced nearly complete small-subunit rRNAs of 54 reference strains belonging to the genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas. We then performed a phylogenetic analysis by comparing the sequences which we obtained with all other known sequences for bacteria belonging to the gamma subgroup of the Proteobacteria (thus providing a data base consisting of 70 sequences for the genera investigated), using methods such as neighbor joining, maximum likelihood, and maximum parsimony, as well as bootstrap, to assess the robustness of each topology. Our results confirmed that the family Vibrionaceae should include only Photobacterium and Vibrio species (but not Vibrio marinus); that Aeromonas species deserve family rank; and that Plesiomonas shigelloides is linked to the family Enterobacteriaceae. The genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas, together with the family Enterobacteriaceae, the family Pasteurellaceae, and probably the genus Alteromonas, form a robust monophyletic unit within the gamma 3 subgroup of the Proteobacteria.
Noise from unsaturated DC erasure and peak shift of signals in longitudinal thin-film disk media (1987)

In thin-film magnetic recording media, noise increases as bit density increases, and is mainly associated with magnetic transition. The present study concerns generation of noise equivalent to this transition noise on thin film disk media using an unsaturated DC erasure method without writing transitions. The relationship between media noise waveform and peak shift of signals measured in a bit-by-bit manner is also investigated. Good relationship between peak shift and H <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">c</inf> fluctuation of media as the integration of the media noise waveform is found.
Control of glycoprotein synthesis. The use of oligosaccharide substrates and HPLC to study the sequential pathway for N-acetylglucosaminyltransferases I, II, III, IV, V, and VI in the biosynthesis of highly branched N-glycans by hen oviduct membranes (1988)

Glycoproteins isolated from hen oviduct contain highly branched asparagine-linked oligosaccharides (N-glycans). Six N-acetylglucosaminyltransferases (GlcNAc-T I, II, III, IV, V, and VI) are involved in initiating the synthesis of these branches, as indicated below: (formula; see text) where R is GlcNAc beta 1----4(+/-Fuc alpha 1----6)GlcNAcAsn-X. HPLC has been used to study the substrate specificities of these GlcNAc-T and the sequential pathways involved in the biosynthesis of highly branched N-glycans in hen oviduct. Oligosaccharides with free reducing GlcNAc termini were prepared from various glycoproteins by hydrazinolysis-re-N-acetylation and used as GlcNAc-T substrates and HPLC standards. Enzyme assay components were separated on AG1 x 8, followed by HPLC on amine-bonded silica columns eluted with acetonitrile-water mixtures. Absorbance at 195 nm and radioactivity of eluted compounds were monitored. Substrates and products were identified by comparison of their retention times with those of oligosaccharides with known structures. Enzyme assay by HPLC is more rapid and convenient than previous GlcNAc-T assays using lectin columns or electrophoresis. Since some substrates yielded multiple products, these could be used to assay more than one GlcNAc-T in the same incubation. GlcNAc-T VI was shown to act on both bisected and nonbisected GlcNAc-terminating tetraantennary oligosaccharide substrates; GlcNAc-T II, IV, and V acted poorly or not at all on bisected substrates. GlcNAc-T V was the only enzyme among the six transferases studied that could be assayed in the absence of Mn2+.
The Differentiation and Stress Response Factor XBP-1 Drives Multiple Myeloma Pathogenesis (2007)

Multiple myeloma (MM) evolves from a highly prevalent premalignant condition termed MGUS. The factors underlying the malignant transformation of MGUS are unknown. We report a MGUS/MM phenotype in transgenic mice with Emu-directed expression of the XBP-1 spliced isoform (XBP-1s), a factor governing unfolded protein/ER stress response and plasma-cell development. Emu-XBP-1s elicited elevated serum Ig and skin alterations. With age, Emu-xbp-1s transgenics develop features diagnostic of human MM, including bone lytic lesions and subendothelial Ig deposition. Furthermore, transcriptional profiles of Emu-xbp-1s lymphoid and MM cells show aberrant expression of known human MM dysregulated genes. The similarities of this model with the human disease, coupled with documented frequent XBP-1s overexpression in human MM, serve to implicate XBP-1s dysregulation in MM pathogenesis.
NUTRIENT USE EFFICIENCY IN PLANTS (2001)

Invariably, many agricultural soils of the world are deficient in one or more of the essential nutrients needed to support healthy plants. Acidity, alkalinity, salinity, anthropogenic processes, nature of farming, and erosion can lead to soil degradation. Additions of fertilizers and/or amendments are essential for a proper nutrient supply and maximum yields. Estimates of overall efficiency of applied fertilizer have been reported to be about or lower than 50% for N, less than 10% for P, and about 40% for K. Plants that are efficient in absorption and utilization of nutrients greatly enhance the efficiency of applied fertilizers, reducing cost of inputs, and preventing losses of nutrients to ecosystems. Inter- and intra-specific variation for plant growth and mineral nutrient use efficiency(NUE) are known to be under genetic and physiological control and are modified by plant interactions with environmental variables. There is need for breeding programs to focus on developing cultivars with high NUE. Identification of traits such as nutrient absorption, transport, utilization, and mobilization in plant cultivars should greatly enhance fertilizer use efficiency. The development of new cultivars with higher NUE, coupled with best management practices (BMPs) will contribute to sustainable agricultural systems that protect and promote soil, water and air quality.
Human and murine cytotoxic T lymphocyte serine proteases: subsite mapping with peptide thioester substrates and inhibition of enzyme activity and cytolysis by isocoumarins (1991)

The active site structures of human Q31 granzyme A, murine granzymes (A, B, C, D, E, and F), and human granzymes (A, B, and 3) isolated from cytotoxic T lymphocytes (CTL) were studied with peptide thioester substrates, peptide chloromethyl ketone, and isocoumarin inhibitors. Human Q31, murine, and human granzyme A hydrolyzed Arg- or Lys-containing thioesters very efficiently with kcat/KM of 10(4)-10(5) M-1 s-1. Murine granzyme B was found to have Asp-ase activity and hydrolyzed Boc-Ala-Ala-Asp-SBzl with a kcat/KM value of 2.3 X 10(5) M-1 s-1. The rate was accelerated 1.4-fold when the 0.05 M NaCl in the assay was replaced with CaCl2. The preparation of granzyme B also had significant activity toward Boc-Ala-Ala-AA-SBzl substrates, where AA was Asn, Met, or Ser [kcat/KM = (4-5) X 10(4) M-1 s-1]. Murine granzymes C, D, and E did not hydrolyze any thioester substrate but contained minor contaminating activity toward Arg- or Lys-containing thioesters. Murine granzyme F had small activity toward Suc-Phe-Leu-Phe-SBzl, along with some contaminating trypsin-like activity. Human Q31 granzyme A, murine, and human granzyme A were inhibited quite efficiently by mechanism-based isocoumarin inhibitors substituted with basic groups (guanidino or isothiureidopropoxy). Although the general serine protease inhibitor 3,4-dichloroisocoumarin (DCI) inactivated these tryptases poorly, it was the best isocoumarin inhibitor for murine granzyme B (kobs/[I] = 3700-4200 M-1 s-1). Murine and human granzyme B were also inhibited by Boc-Ala-Ala-Asp-CH2Cl; however, the inhibition was less potent than that with DCI. DCI, 3-(3-amino-propoxy)-4-chloroisocoumarin, 4-chloro-3-(3-isothiureidopropoxy)isocoumarin, and 7-amino-4-chloro-3-(3-isothiureidopropoxy)isocoumarin inhibited Q31 cytotoxic T lymphocyte mediated lysis of human JY lymphoblasts (ED50 = 0.5-5.0 microM).
How Does Genotype Influence Disease Phenotype in Inflammatory Bowel Disease? (2013)

Inflammatory bowel diseases (Crohn's disease and ulcerative colitis) are chronic immunologically mediated diseases of the gut. Advances in genetics have revolutionized our understanding of the pathogenesis of these conditions with 163 risk loci identified, encompassing a variety of immunologic functions. There is substantial heterogeneity in the natural history of these diseases with respect to disease onset, course, and progression to complications. There are also significant variations in response to therapies and susceptibility to therapy-related and disease-related complications. An important need in the field is to identify predictors of disease course, complications, and likelihood of response and adverse events to allow for targeted therapeutic decision making. The genotype of an individual in constant and non-modifiable, and thus could potentially fulfill the role of important predictors of these outcomes. In this review, we discuss the existing literature on the prediction of various disease phenotypes in Crohn's disease and ulcerative colitis using underlying genotype. We also identify gaps in the literature and suggest future directions for research. There is need for large, multi-institutional, and international collaborative consortia with efficient and detailed cohort accrual, phenotypic definition, genotyping, and dynamic assessments of external (e.g., diet) and internal (microbiome) environment to allow us to progress toward personalized and precision medicine in the management of these complex diseases.