gebhart/patrepeval huggingface dataset:
Enterohemorrhagic <i>Escherichia coli</i> O157:H7 <i>gal</i> Mutants Are Sensitive to Bacteriophage P1 and Defective in Intestinal Colonization (2006)

Enterohemorrhagic Escherichia coli (EHEC), especially E. coli O157:H7, is an emerging cause of food-borne illness. Unfortunately, E. coli O157 cannot be genetically manipulated using the generalized transducing phage P1, presumably because its extensive O antigen obscures the P1 receptor, the lipopolysaccharide (LPS) core subunit. The GalE, GalT, GalK, and GalU proteins are necessary for modifying galactose before it can be assembled into the repeating subunit of the O antigen. Here, we constructed E. coli O157:H7 gal mutants which presumably have little or no O antigen. These strains were able to adsorb P1. P1 lysates grown on the gal mutant strains could be used to move chromosomal markers between EHEC strains, thereby facilitating genetic manipulation of E. coli O157:H7. The gal mutants could easily be reverted to a wild-type Gal(+) strain using P1 transduction. We found that the O157:H7 galETKM::aad-7 deletion strain was 500-fold less able to colonize the infant rabbit intestine than the isogenic Gal(+) parent, although it displayed no growth defect in vitro. Furthermore, in vivo a Gal(+) revertant of this mutant outcompeted the galETKM deletion strain to an extent similar to that of the wild type. This suggests that the O157 O antigen is an important intestinal colonization factor. Compared to the wild type, EHEC gal mutants were 100-fold more sensitive to a peptide derived from bactericidal permeability-increasing protein, a bactericidal protein found on the surface of intestinal epithelial cells. Thus, one way in which the O157 O antigen may contribute to EHEC intestinal colonization is to promote resistance to host-derived antimicrobial polypeptides.
Ustekinumab and Marked Clinical Responses in Patients with Moderate to Severe Psoriasis (2010)

Background Ustekinumab has demonstrated significant efficacy and favorable safety in patients with moderate to severe psoriasis. Objective Characterization of patients achieving marked clinical responses (Psoriasis Area and Severity Index [PASI] 90 or Physician's Global Assessment [PGA] of cleared) in two double-blind, placebo-controlled, phase III studies. Methods PHOENIX 1 (n=766) and PHOENIX 2 (n=1,230) patients were randomized to receive placebo or ustekinumab 45 or 90 mg at weeks 0 and 4, then every 12 weeks. At week 12, placebo patients crossed over to ustekinumab. Marked responses, defined as PASI 90 or PGA of cleared, are reported. Results A significantly higher proportion of ustekinumab-treated patients in PHOENIX 1 (39.9%) and PHOENIX 2 (47.0%) achieved marked responses at week 12, compared with placebo-treated patients (p<0.001 each). At week 28, approximately 50% of ustekinumab-treated patients achieved marked responses. Conclusion Significant proportions of ustekinumab-treated patients with moderate to severe psoriasis achieved marked clinical responses through week 28. Ustekinumab had a favorable risk-benefit profile through up to 18 months of follow-up.
PyNAST: a flexible tool for aligning sequences to a template alignment (2009)

PyNAST is available at http://pynast.sourceforge.net.
Cytomegalovirus Retinitis in a Patient Treated with Anti--Tumor Necrosis Factor Alpha Antibody Therapy for Rheumatoid Arthritis (2004)

In the light of this first reported case of a serious CMV infection following therapy with anti-TNF- alpha antibodies, CMV infection should be considered in symptomatic patients.
Efficacy of 4-methylpyrazole for treatment of ethylene glycol intoxication in dogs (1994)

4-Methylpyrazole (4-MP), an alcohol dehydrogenase inhibitor, was administered to dogs to treat ethylene glycol (EG) intoxication. Eleven dogs were given 10.6 g of EG/kg of body weight; 5 dogs were treated with 4-MP 5 hours after EG ingestion and 6 dogs were treated with 4-MP 8 hours after EG ingestion. 4-Methylpyrazole was administered IV as a 50-mg/ml [corrected] solution in 50% polyethylene glycol: initial dose, 20 mg/kg; at 12 hours after initial dose, 15 mg/kg; at 24 hours after initial dose, 10 mg/kg; and at 30 hours after initial dose, 5 mg/kg. Physical, biochemical, hematologic, blood gas, serum and urine EG concentrations, and urinalysis findings were evaluated at 0, 1, 3, 6, 9, 12, 24, 48, 72 hours, and at 1 week and 2 weeks after EG ingestion. Dogs of both groups developed clinicopathologic signs associated with EG intoxication, including CNS depression, hyperosmolality, high anion gap metabolic acidosis, polydipsia, polyuria, calcium oxalate monohydrate and dihydrate crystalluria, and isosthenuria. Fractional excretion of sodium was increased in all dogs between 1 and 9 hours after EG ingestion, but remained increased beyond 24 hours only in the 2 dogs treated at 8 hours after EG ingestion that developed acute renal failure. All dogs treated 5 hours after EG ingestion recovered without morphologic, biochemical, or clinical evidence of renal impairment. Of the 6 dogs treated 8 hours after EG ingestion, 2 developed acute renal failure. One of the dogs treated 8 hours after EG ingestion remained isosthenuric for 2 months, but did not manifest any other signs of renal impairment.(ABSTRACT TRUNCATED AT 250 WORDS)
Seismic Stratigraphy and Global Changes of Sea Level: Part 2. The Depositional Sequence as a Basic Unit for Stratigraphic Analysis: Section 2. Application of Seismic Reflection Configuration to Stratigraphic Interpretation (1977)

A depositional is a stratigraphic unit composed of a relatively conformable succession of genetically related strata and bounded at its top and base by unconformities or their correlative conformities. This concept of a sequence is modified from Sloss. A depositional is determined by a single objective criterion, the physical relations of the strata themselves. The combination of objective determination of boundaries and the systematic patterns of deposition of the genetically related strata within sequences makes the concept a fundamental and extremely practical basis for the interpretation of stratigraphy and depositional facies. Because distribution and facies of many sequences are controlled by global changes of sea level, sequenc s also provide an ideal basis for establishing comprehensive stratigraphic frameworks on regional or global scales. A depositional is chronostratigraphically significant because it was deposited during a given interval of geologic time limited by ages of the boundaries where the boundaries are conformities; however the age range of the strata within the may differ from place to place where the boundaries are unconformities. The hiatus along the unconformable part of a boundary generally is variable in duration. The hiatus along the conformable part is not measureable, and the surface is practically synchronous. Stratal surfaces within a are essentially synchronous in terms of geologic time. Depositional sequences may range in thickness from hundreds of meters to a few centimeters. Sequences of different magnitudes may be recognized on seismic sections, well-log sections, and surface outcrops. To define and correlate a depositional accurately, the boundaries must be defined and traced precisely. Usually the boundaries are defined at unconformities and traced to their correlative conformities. Discordance of strata is the main criterion used in the determination of boundaries, and the type of discordant relation is the best indicator of whether an unconformity results from erosion or nondeposition. Onlap, downlap, and toplap indicate nondepositional hiatuses; truncation indicates an erosional hiatus unless the truncation is a result of structural disruption. Examples of depositional sequences are presented on well-log and seismic sections. Both examples depend primarily on correlation of physical stratigraphic surfaces for identification of the unconformities bounding the sequences, and on biostratigraphic zonation for determination of the geologic ages of the sequences.
Physical-chemical properties of C-phycocyanin isolated from an acido-thermophilic eukaryote, <i>Cyanidium caldarium</i> (1975)

C-Phycocyanin from an acido-thermophilic eukaryotic alga, Cyanidium caldarium, was characterized with respect to subunit structure, absorption spectrum and fluorescence properties and was found to be similar to C-phycocyanins from mesophilic sources. The pH-dependence of fluorescence polarization and the changes in sedimentation velocity as a function of pH, concentration and temperature indicate the presence of extremely large amounts of unusually stable 19S aggregates. It was not possible to disaggregate this phycocyanin completely to monomer under normal conditions. The amino acid composition is similar to that of phycocyanins from other thermophilic and halophilic sources. The isoelectric point of this C-phycocyanin was 5.11, an unusually high value. The properties of this C-phycocyanin suggest an increase in protein stability as its mode of adaptation to the environmental stress of high temperature.
Acute alcohol produces hypoxia directly in rat liver tissue in vivo: role of Kupffer cells (1996)

Previous studies using liver slices and isolated perfused rat liver have suggested that ethanol causes hypoxia by increasing oxygen consumption. However, ethanol also increases blood flow to the liver, a phenomenon that may counteract the effects of hypermetabolism by increasing oxygen delivery. Thus whether ethanol causes hypoxia in vivo remains unclear. To clarify this important point, female Sprague-Dawley rats (100-125 g) simultaneously received pimonidazole (120 mg/kg ip), a 2-nitroimidazole hypoxia marker, and one large dose of ethanol (5 g/kg ig), which increase hepatic oxygen uptake dramatically and elevate ethanol metabolism (swift increase in alcohol metabolism) in 2-3 h. After 2 h, ethanol significantly increased the accumulation of bound pimonidazole in pericentral regions of the liver lobule. Treatment of animals with the Kupffer cell-specific toxicant, GdCl3 (10 mg/kg iv, 24 h before experiment), blocked ethanol-induced increases in pimonidazole binding. It is concluded that one large dose of ethanol causes pericentral hypoxia in rat liver tissue in vivo and that Kupffer cells are involved.
Screening for Prostate Cancer by Using Random-Effects Models (2003)

Summary Random-effects models are used to screen male participants in a long-term longitudinal study for prostate cancer. By using posterior probabilities, each male can be classified into one of four diagnostic states for prostate disease: normal, benign prostatic hyperplasia, local cancer and metastatic cancer. Repeated measurements of prostate-specific antigen, collected when there was no clinical evidence of prostate disease, are used in the classification process. An individual's screening data are considered one repeated measurement at a time as his data are collected longitudinally over time. Posterior probabilities are calculated on the basis of data from other individuals with confirmed diagnoses of each of the four diagnostic states.
FOXM1: An emerging master regulator of DNA damage response and genotoxic agent resistance (2014)

FOXM1 is a transcription factor required for a wide spectrum of essential biological functions, including DNA damage repair, cell proliferation, cell cycle progression, cell renewal, cell differentiation and tissue homeostasis. Recent evidence suggests that FOXM1 also has a role in many aspects of the DNA damage response. Accordingly, FOXM1 drives the transcription of genes for DNA damage sensors, mediators, signal transducers and effectors. As a result of these functions, it plays an integral part in maintaining the integrity of the genome and so is key to the propagation of accurate genetic information to the next generation. Preserving the genetic code is a vital means of suppressing cancer and other genetic diseases. Conversely, FOXM1 is also a potent oncogenic factor that is essential for cancer initiation, progression and drug resistance. An enhanced FOXM1 DNA damage repair gene expression network can confer resistance to genotoxic agents. Developing a thorough understanding of the regulation and function of FOXM1 in DNA damage response will improve the diagnosis and treatment of diseases including cancer, neurodegenerative conditions and immunodeficiency disorders. It will also benefit cancer patients with acquired genotoxic agent resistance.
Post-digital printmaking: CNC, traditional, and hybrid techniques (2012)

This groundbreaking book establishes Post-Digital Printmaking as a distinct area of printmaking practice both technically and conceptually. Radically different from digital print production (inkjet on high-quality paper), Post-Digital Printmaking integrates Computer Numeric Control (CNC) devices such as laser cutters and CNC routers with matrix production for lithography, intaglio and relief. This contemporary practice incorporates the strengths of both digital and traditional, resulting in hybrid printmaking techniques. A comprehensive and accessible technical introduction to this important area of printmaking, this book explains techniques and processes in detail, discusses the contexts within which Post-Digital Printmaking has arisen, and includes examples and case studies of artists applying these hybrid techniques in their work.
Computation of Thin-Plate Splines. (1991)

Thin-plate splines are an attractive method for interpolating and smoothing arbitrarily spaced points in the plane. A major problem in the application of thin-plate splines is that their computation involves the solution of a linear system that is illconditioned for large data sets. A technique for preconditioning the system is proposed that greatly extends the usefulness of thin-plate splines.
Notes-The Synthesis of 21-O-Alkylhydrocortisone Derivatives and of 11B_Hydroxy-17,21-methylenedioxy-4-pregnene-3,20-dione (1961)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNotes-The Synthesis of 21-O-Alkylhydrocortisone Derivatives and of 11B_Hydroxy-17,21-methylenedioxy-4-pregnene-3,20-dioneWilliam AllenCite this: J. Org. Chem. 1961, 26, 10, 4153–4155Publication Date (Print):October 1, 1961Publication History Published online3 July 2002Published inissue 1 October 1961https://pubs.acs.org/doi/10.1021/jo01068a632https://doi.org/10.1021/jo01068a632research-articleACS PublicationsRequest reuse permissionsArticle Views54Altmetric-Citations7LEARN 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
Procedure Guideline for Myocardial Perfusion Imaging 3.3 (2008)

The purpose of this guideline is to assist nuclear medicine practitioners in recommending, performing, interpreting, and reporting the results of myocardial perfusion imaging studies. Myocardial perfusion imaging uses an intravenously administered radiopharmaceutical to depict the distribution of
A 48ps ECL in a self-aligned bipolar technology (1987)

A polysilicon edge base contact bipolar technology with a gate array of 48ps and a mixed ECL-I <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> L frequency divider operating at 10GHz will be described.
Polycarbonate microchannel network with carpet of Gold NanoWires as SERS-active device (2009)

A polycarbonate (PC) microchannel network supporting gold nanowires was developed to be a SERS-active microchip. Observations of large increases in a Raman cross-section, allowed us to collect vibrational signatures which are not easily detectable by Raman techniques due to the high fluorescence level of bare PC. Compared to other SERS experiments, this study relies on the use of dielectric polymer/metal surfaces which are well defined at microscale and nanoscale levels. This device seems a promising tool for sensing the adsorption of biomolecules.
Effect of adrenergic and nitrergic blockade on experimental ileus in rats (1997)

1. In a rat model of experimental ileus, the effect of blockade of adrenergic and nitrergic neurotransmission was studied on the intestinal transit of Evans blue. 2. Ether anaesthesia and skin incision had no influence on the transit. Laparotomy significantly inhibited the transit of Evans blue. This inhibition was even more pronounced when the small intestine was manipulated. 3. Reserpine (5 mg kg-1), a drug that blocks adrenergic neurotransmission, completely reversed the inhibition of the transit induced by laparotomy but only partially reversed that induced by laparotomy with manipulation of the small intestine. 4. N omega-nitro-L-arginine (L-NOARG, 5 mg kg-1), a nitric oxide synthase inhibitor, completely reversed the reserpine-resistant inhibition induced by laparotomy with manipulation of the small intestine. The effect of L-NOARG was prevented by concomitant administration of L-arginine. L-Arginine itself slightly, but significantly enhanced the inhibition. S-methylisothiourea and aminoguanidine, selective inhibitors of the inducible NO synthase, had no effect on the transit after the three operations. 5. Treatment of the rats with reserpine plus L-NOARG had no additional effect on the transit after laparotomy as compared to reserpine alone. However, reserpine plus L-NNA completely reversed the inhibition of the transit induced by laparotomy with manipulation of the small intestine. 6. These findings support the involvement of adrenergic pathways in the pathogenesis of ileus and suggest that the additional inhibitory effect of mechanical stimulation results from an enhanced release of NO by the constitutive NO synthase.
First Ignition of an UV Microwave Microplasma in Ar-filled Hollow-Core Photonic Crystal Fibers (2011)

We report on the first ignition of efficient and stable microwave columns of microplasmas directly inside large Ar-filled hollow-core photonic crystal fibers. Optical characterizations of UV guided light are also presented.
Circulating and disseminated tumor cells from breast cancer patient-derived xenograft-bearing mice as a novel model to study metastasis (2015)

This study suggests that CTCs and BM-DTCs detected in BC PDX-bearing mice may represent a valuable and unique preclinical model for investigating the role of these rare cells in tumor metastases.
Noncovalent Template-Assisted Mimicry of Multiloop Protein Surfaces: Assembling Discontinuous and Functional Domains (2012)

We report here a novel noncovalent synthetic strategy for template-assembled de novo protein design. In this approach, a peptide was first conjugated with two oligoguanosine strands via click chemistry and the conjugates were then self-assembled in the presence of metal ions. G-quadruplex formation directs two peptide strands to assemble on one face of the scaffold and form an adjacent two loop surface. This approach can be used to rapidly prepare multiple two-loop structures with both homo- and heterosequences.
Quantitative comparison of microarray experiments with published leukemia related gene expression signatures (2009)

The presented approach helps researchers to systematically integrate the knowledge derived from numerous microarray experiments into the analysis of a new dataset. By means of example leukemia datasets we demonstrate that this approach detects related experiments as well as related molecular mutations and may help to interpret new microarray data.
Usefulness of Kinetic Enzyme Parameters in Biotechnological Practice (2010)

The kcat /KM ratio, where kcat is the catalytic constant for the conversion of substrate into product, and KM is the Michaelis constant, has been widely used as a measure of enzyme performance, but recent analyses have underscored the inadequacy of this ratio to describe the efficiency of a biocatalyst, particularly when employed as a criterion for selecting between enzyme variants for industrial purposes. The main problem with this kinetic relationship is that it neglects the contribution of important factors operating in actual bioprocess conditions, such as substrate concentrations and product inhibition, leading to unreal expectations on enzyme performance and erroneous selection of the most adequate biocatalyst. Two complementary formalisms, the efficiency function and the catalytic effectiveness, have been introduced to incorporate important features of any bio-industrial system. We review herein the rationales underlying each derivation, and the strengths and fields of application of both strategies. Examples of different situations, including continuous and batch-type reactors, as well as reversible and irreversible processes, are provided, together with recommendations on the use of both approaches.
The Road from Discovery to Clinical Diagnostics: Lessons Learned from the First FDA-Cleared<i>In Vitro</i>Diagnostic Multivariate Index Assay of Proteomic Biomarkers (2010)

Provide insights and recommendations for the translation of proteomic biomarkers into clinical diagnostics.
Experiences in developing collaborative applications using the World Wide Web “shell” (1996)

Article Free Access Share on Experiences in developing collaborative applications using the World Wide Web “shell” Authors: Andreas Girgensohn NYNEX Science and Technology, 500 Westchester Avenue, White Plains, NY NYNEX Science and Technology, 500 Westchester Avenue, White Plains, NYView Profile , Alison Lee NYNEX Science and Technology, 500 Westchester Avenue, White Plains, NY NYNEX Science and Technology, 500 Westchester Avenue, White Plains, NYView Profile , Kevin Schueter NYNEX Science and Technology, 500 Westchester Avenue, White Plains, NY and University of Toronto, Department of Computer Science, Toronto, Ontario M5S 1A4 NYNEX Science and Technology, 500 Westchester Avenue, White Plains, NY and University of Toronto, Department of Computer Science, Toronto, Ontario M5S 1A4View Profile Authors Info & Claims HYPERTEXT '96: Proceedings of the the seventh ACM conference on HypertextMarch 1996 Pages 246–255https://doi.org/10.1145/234828.234852Published:01 March 1996Publication History 11citation504DownloadsMetricsTotal Citations11Total Downloads504Last 12 Months2Last 6 weeks0 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF