gebhart/patrepeval huggingface dataset:
Retraction of “A Mechanistic Model for the Aziridine Aldehyde-Driven Macrocyclization of Peptides” (2017)

ADVERTISEMENT RETURN TO ISSUEPREVRetractionNEXTRetraction of "A Mechanistic Model for the Aziridine Aldehyde-Driven Macrocyclization of Peptides"Lee Belding, Serge Zaretsky, Andrei K. Yudin*, and Travis Dudding*Cite this: J. Org. Chem. 2017, 82, 8, 4512Publication Date (Web):March 8, 2017Publication History Received2 December 2016Published online8 March 2017Published inissue 21 April 2017https://pubs.acs.org/doi/10.1021/acs.joc.6b02899https://doi.org/10.1021/acs.joc.6b02899retractionACS PublicationsCopyright © 2017 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views1493Altmetric-Citations-LEARN 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 PDF (156 KB) Get e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Fli-1 inhibitors reduce the production of inflammatory cytokines in human renal glomerular endothelial cells and ameliorate lupus nephritis in NZB/W F1 mice (2020)

Abstract Expression of transcription factor Fli-1 impacts lupus nephritis (LN) development in both human patients and murine models of lupus. We studied the effects of camptothecin and topotecan, Fli-1 inhibitors, on LN in NZB/W F1 mice and renal endothelial cells. Human Renal Glomerular Endothelial Cells (HRGEC) were treated with Fli-1 inhibitors, and inflammatory cytokines were measured after stimulation with IFN-α and IFN-γ. NZB/W F1 female mice were treated with camptothecin, topotecan, cyclophosphamide, or vehicle control. Blood and urine were collected, and autoantibodies and proteinuria were monitored. The expression of Fli-1 in HRGEC, when treated with 0.1 μM or higher concentrations of camptothecin, was significantly reduced. The production of MCP-1 and IP-10, inflammatory cytokines associated with LN development, were significantly lower in the HRGEC treated with camptothecin compared to the HRGEC treated with DMSO at 4 and 24 hours following stimulation with IFN-α and IFN-γ at the concentration of 100 ng/ml. NZB/W F1 mice were treated with camptothecin, topotecan, cyclophosphamide, or PBS control when more than 40% of mice had proteinuria higher than 30 mg/dL. At the age of 37 weeks, 70% of NZB/W F1 mice treated with vehicle had proteinuria higher than 2,000 mg/dL. None of the NZB/W F1 mice treated with camptothecin or topotecan had proteinuria higher than 100 mg/dL. One of the NZB/W F1 mice treated with cyclophosphamide had proteinuria higher than 100 mg/dL. Blood urea nitrogen (BUN) was lower in the sera from NZB/W F1 mice treated with camptothecin, topotecan, or cyclophosphamide compared to that of the mice treated with vehicle. Together, these results indicate that Fli-1 inhibitors are novel therapeutic approaches in treating LN.
Disease, clinical, and treatment characteristics of patients (pts) with polycythemia vera (PV) enrolled in the REVEAL study. (2016)

e18557 Background: Limited real-world data exist about the burden of PV and treatment patterns in the US. REVEAL describes burden of disease, clinical management of PV, and patient-reported outcomes for US pts with PV. Methods: REVEAL is a prospective, observational study enrolling adults ≥ 18 years (y) with PV. Disease/clinical characteristics, treatment patterns, and patient-reported outcomes data are collected at usual-care visits over a 36-mo period. This updated analysis describes physician-reported disease/clinical characteristics and treatment patterns of currently enrolled pts (data cutoff, 13 Nov 2015). Results: 1687 pts were enrolled from 191 sites (academic n = 28; community n = 163). The primary methods of PV diagnosis were elevated Hgb, +JAK2V617F test, and low serum EPO level. Elevated WBC and platelets, and splenomegaly led to diagnosis in 19.9%, 29.3%, and 6.9% of pts, respectively. 44.1% of pts had ≥ 1 symptom that led to diagnosis; the most common symptoms were fatigue 21.7%, pruritus 13.1%, muscle aches/bone pain 8.4%, insomnia 5.7%, and night sweats 5.2%. 11.4% of pts had a history of thrombotic events (TE) at diagnosis. 5.9% had a family history of PV. At enrollment, median age was 67 y, 54% were male, 89.5% were white, 45.6% had smoked, 51.4% were retired, 32.6% were employed, and 4.3% were unable to work/disabled. Median disease duration was 4.3 y; 18.4% of pts were diagnosed < 1 y and 41.0% were diagnosed > 5 y before study entry. Mean hematocrit was 44.8%, Hgb was 14.4 g/dL, WBC count was 10.6×109/L, and platelet count was 782.8×109/L. At enrollment, 19.4% had a history of TE; 11.3% and 9.2% had ≥ 1 venous or arterial TE. The most common symptoms were fatigue 36.7%, pruritus 23.5%, headache 17.3%, insomnia 16.8%, dizziness 13.5%, dyspnea 12.9%, and bone pain 11.4%. Of pts who had spleen palpation data, 19.0% had splenomegaly. The most common PV treatments ± aspirin were phlebotomy (PHL, 32.1%), hydroxyurea (HU, 28.2%), and PHL + HU (24.5%). Conclusions: These data show that pts had a high symptom burden and TE rate at diagnosis that remained high at enrollment. Longitudinal data from REVEAL can provide better understanding of disease continuum, complications, and consequences of PV. Clinical trial information: NCT02252159.
Metalloselenonein, the selenium analogue of metallothionein: synthesis and characterization of its complex with copper ions. (1991)

We used an automated peptide synthesizer to produce a peptide, metalloselenonein, that contains selenocysteine residues substituted for all cysteine residues in Neurospora crassa copper metallothionein. Metalloselenonein binds 3 mol of Cu(I) per mol. This adduct shows a broad absorption band between 230 and 400 nm and a fluorescence band at 395 nm, which can be attributed to copper-selenolate coordination. The circular dichroism spectrum of the copper-metalloselenonein complex shows a positive band around 245 nm attributable to asymmetry in metal coordination.
Semi-unified Caches (1993)

The purpose of the semi-unified on-chip cache organization, is to use the data cache (resp. ins truction cache) as an on-chip second-level cache for instructions (resp. data). Thus the associativity de gree of both on-chip caches is artificially increased, and the cache spaces respectively devoted to instruc tions and data are dynamically adjusted. The off-chip miss ratio of a semi-unified cache built with two directmapped caches of size S is equal to the miss ratio of a unified two-way set associative cache of size 2S; yet, the hit time of this semi-unified cache is equal to the hit time of a direct-mapped cache. Trace driven simu lations show that using a direct-mapped semi-unified cache organization leads to higher overall system per formance than using usual split instruction/data cache organization.
Oxidation, Reduction, and Methylation of Carnosic Acid by <i>Nocardia</i> (2002)

Preparative-scale incubations with Nocardia sp. NRRL 5646 were conducted to produce new derivatives of the abietane diterpene chemoprotectant and antioxidant carnosic acid (1). Reductive biotransformation of the C-20 carboxylic acid functional group followed by biological methylation at the C-11 phenol afforded 4. Oxidative cyclization of 1 to carnosol 5 followed by dihydroxylation at the isopropyl moiety afforded 6. Metabolites 4 and 6 are new carnosic acid derivatives whose structures were confirmed by mass spectrometry and NMR spectroscopic analysis. The radical quenching properties of 4-6 using the 2,2-diphenyl-1-picrylhydrazyl (DPPH) free-radical-scavenging assay showed activities similar to that of mixed tocopherols and carnosic acid.
Application of multivariate analysis for optimizing &amp; predicting hepatic function (2003)

An optimization model based upon multivariate analysis was developed to capture hepatic specific function in relation to the environmental condition and the intracellular metabolic network and the flux information obtained from metabolic flux analysis (MFA). Fisher discriminant analysis (FDA) was applied to maximize the discrimination among groups thus permitting visualization of the sample separation between different conditions. FDA identified factors that contribute greatly to the separation of the groups. Mapping fluxes to a hepatic function permits an examination of the interrelationship of the fluxes and captures the hepatic function in terms of the metabolic profile. Partial least square (PLS) was the mapping technique applied to evaluate the effect of metabolic state on hepatic function, namely, the levels of intracellular triglyceride or urea production. This methodology identified fluxes most relevant to minimizing the accumulation of intracellular triglyceride and maximizing the production of urea, two important hepatic functions. In the study, 75 metabolic fluxes were mapped to measured levels of intracellular triglyceride or urea. Once a mapping model was constructed, analyzing the model parameters permitted the assessment of how the metabolic profile, in turn, pathways collectively regulate and control hepatic function by identifying pathways that are highly correlated with the hepatic function.
High-Accuracy Gaze Estimation for Interpolation-Based Eye-Tracking Methods (2021)

This study investigates the influence of the eye-camera location associated with the accuracy and precision of interpolation-based eye-tracking methods. Several factors can negatively influence gaze estimation methods when building a commercial or off-the-shelf eye tracker device, including the eye-camera location in uncalibrated setups. Our experiments show that the eye-camera location combined with the non-coplanarity of the eye plane deforms the eye feature distribution when the eye-camera is far from the eye's optical axis. This paper proposes geometric transformation methods to reshape the eye feature distribution based on the virtual alignment of the eye-camera in the center of the eye's optical axis. The data analysis uses eye-tracking data from a simulated environment and an experiment with 83 volunteer participants (55 males and 28 females). We evaluate the improvements achieved with the proposed methods using Gaussian analysis, which defines a range for high-accuracy gaze estimation between -0.5∘ and 0.5∘. Compared to traditional polynomial-based and homography-based gaze estimation methods, the proposed methods increase the number of gaze estimations in the high-accuracy range.
Enantioselective Total Synthesis of (+)- and (−)-Nigellamine A<sub>2</sub> (2006)

The nigellamine alkaloids are dolabellane diterpenes displaying potent lipid metabolism-promoting activity. Total synthesis of (+)- and (-)-nigellamine A2 has been accomplished. Absolute stereochemistry of synthetic nigellamine A2 was established through an intramolecular asymmetric allylic alkylation using a Pd(phosphinooxazoline) catalyst. Other notable transformations include a radical alkynylation, a diastereoselective Nozaki-Hiyama-Kishi cyclization, and a regio- and stereoselective catalytic epoxidation. On the basis of X-ray crystallographic analysis of an optically active intermediate, we have confirmed the assigned absolute stereochemistry of the natural product. Minor modifications of the synthetic sequence outlined here should provide access to the other nigellamine alkaloids.
Serum Metabolomics in a <i>Helicobacter hepaticus</i> Mouse Model of Inflammatory Bowel Disease Reveal Important Changes in the Microbiome, Serum Peptides, and Intermediary Metabolism (2012)

Inflammatory bowel disease (IBD) is a chronic relapsing inflammatory disorder of the bowel. The etiology remains unknown, but IBD is immune-driven and multiple factors including genetic, environmental, and microbiological components play a role. Recombinase-activating gene-2-deficient (Rag2–/–) mice infected with Helicobacter hepaticus (H. hepaticus) have been developed as an animal model to imitate naturally occurring inflammatory events and associated key features of chronic inflammatory responses in humans. In this study, we have combined mass spectrometry-based metabolomics and peptidomics to analyze serum samples of Rag2–/– mice infected with H. hepaticus. Metabolomics profiling revealed that H. hepaticus infection dramatically changed numerous metabolite pathways, including tryptophan metabolism, glycerophospholipids, methionine-homocysteine cycle, citrate cycle, fatty acid metabolism and purine metabolism, with the majority of metabolites being down-regulated. In particular, there were notable effects of gut microflora on the blood metabolites in infected animals. In addition, the peptidomics approach identified a number of peptides, originating from proteins, including fibrinogen, complement C4, and alpha-2-macroglobulin, with diverse biological functions with potentially important implications for the progress of IBD. In summary, the strategy of integrating a relevant animal model and sensitive mass spectrometry-based profiling may offer a new perspective to explore biomarkers and provide mechanistic insights into IBD.
Switchable Plasmonics: Switchable Plasmonic Nanocomposites (Advanced Optical Materials 1/2019) (2019)

In article number 1801101, Mady Elbahri and Shahin Homaeigohar provide a review that, starting from the ancient switchable plasmonic nanocomposites, up to the present of reversible plasmonic reconfiguration with order–disorder switching, ends up with the new class of switchable plasmonic molecules as a future outlook.
Rethinking Water Splitting (2009)

FeRu-based metal–organic framework bifunctional catalysts for hydrogen production and methanol electroreforming,
Broadband, slow sound on a glide-symmetric meander-channel surface (2019)

The acoustic surface waves supported by hard surfaces patterned with repeat-period, meandering grooves are explored. The single, continuous groove forms a glide-symmetric surface, inhibiting the formation of a bandgap at the first Brillouin-zone boundary. Consequently, the acoustic surface waves exhibit an almost constant, sub-speed-of-sound, group velocity over a broad frequency band. Such slow, broadband modes may have applications in controlling the flow of noise over surfaces.
High performance anticorrosive coatings based on new phosphonic methacrylate terpolymers Part A Polymer chemistry (2009)

This article describes the synthesis of new methacrylic-phosphonated monomer PM(B) obtained from the diethyl-1,2-epoxide-propyl 2-phosphonate opening by methacrylic acid in presence of the tetrabutyl ammonium bromide as catalyst. Both its homopolymerization and copolymerization with methyl methacrylate (MMA) have been achieved in acetonitrile at 80 °C in the presence of 4,4'-azobisisobutyronitrile. The determination of the reactivity ratios evidenced a statistical copolymer structure. Then, terpolymer of low degree of polymerization and composed of MMA, butyl methacrylate (BuMA) and PM(B) was synthesized and showed a high thermal stability (no degradation before 300 °C). This phosphonate terpolymer was incorporated in an acrylate formulation, polymerized under UV-light, and the resulting coating was subjected to the salt spray test. High resistance towards corrosion was observed as no corrosion occurred even after 1100 hrs to the salt spray test. This result was also confirmed by Electrochemical Impedance Spectroscopy.
Formulae for the Design of Polarization-Insensitive Multimode Interference Couplers (2011)

We present simple analytical formulae to explicitly show the effects of various waveguide parameters in the design of multimode interference (MMI) couplers with a general strip waveguide structure. In particular, we find that polarization-insensitive operation can be achieved by using a suitable width of the waveguide core to balance the modal birefringence in the slab waveguide which is the intermediate structure in the process of fabricating the strip waveguide. This finding suggests an efficient and practical approach to realizing polarization-insensitive MMI couplers based on reliable measurement data.
PTHR1 polymorphisms influence BMD variation through effects on the growing skeleton (2005)

We investigated whether polymorphisms in PTHR1 are associated with bone mineral density (BMD), to determine whether the association of this gene with BMD was due to effects on attainment of peak bone mass or effects on subsequent bone loss. The PTHR1 gene, including its 14 exons, their exon-intron boundaries, and 1,500 bp of its promoter region, was screened for polymorphisms by denaturing high-performance liquid chromatography (dHPLC) and sequencing in 36 osteoporotic cases. Eleven single-nucleotide polymorphisms (SNPs), one tetranucleotide repeat, and one tetranucleotide deletion were identified. A cohort of 634 families, including 1,236 men (39%) and 1,926 women (61%) ascertained with probands with low BMD (Z5%) and the tetranucleotide repeat. In our osteoporosis families, association was noted between lumbar spine BMD and alleles of a known functional tetranucleotide repeat (U4) in the PTHR1 promoter region (P = 0.042) and between two and three marker haplotypes of PTHR1 polymorphisms with lumbar spine, femoral neck, and total hip BMD (P = 0.021-0.047). This association was restricted to the youngest tertile of the population (age 16-39 years, P = 0.013-0.048). A similar association was found for the ALSPAC cohort: two marker haplotypes of SNPs A48609T and C52813T were associated with height (P = 0.006) and total body less head BMD (P = 0.02), corrected for age and gender, confirming the family findings. These findings suggest a role for PTHR1 variation in determining peak BMD.
Biomorphic Multi-Agent Architecture for Persistent Computing (2009)

A multi-agent software/hardware architecture, inspired by the multicellular nature of living organisms, has been proposed as the basis of design of a robust, reliable, persistent computing system. Just as a multicellular organism can adapt to changing environmental conditions and can survive despite the failure of individual cells, a multi-agent computing system, as envisioned, could adapt to changing hardware, software, and environmental conditions. In particular, the computing system could continue to function (perhaps at a reduced but still reasonable level of performance) if one or more component( s) of the system were to fail. One of the defining characteristics of a multicellular organism is unity of purpose. In biology, the purpose is survival of the organism. The purpose of the proposed multi-agent architecture is to provide a persistent computing environment in harsh conditions in which repair is difficult or impossible. A multi-agent, organism-like computing system would be a single entity built from agents or cells. Each agent or cell would be a discrete hardware processing unit that would include a data processor with local memory, an internal clock, and a suite of communication equipment capable of both local line-of-sight communications and global broadcast communications. Some cells, denoted specialist cells, could contain such additional hardware as sensors and emitters. Each cell would be independent in the sense that there would be no global clock, no global (shared) memory, no pre-assigned cell identifiers, no pre-defined network topology, and no centralized brain or control structure. Like each cell in a living organism, each agent or cell of the computing system would contain a full description of the system encoded as genes, but in this case, the genes would be components of a software genome.
Ruptura de emulsiones asfálticas catiónicas y no iónicas mediante la adición de arena (2013)

"Cuando una emulsión asfáltica de tipo catiónica, se pone en contacto con un sólido granulado, algunas fuerzas fisicoquímicas tienen lugar, tales como la adsorción sobre la superficie del sólido del surfactante catiónico proveniente de la fase acuosa continua de la emulsión asfáltica. Como consecuencia de estas transferencias moleculares, la superficie del sólido cambia de hidrofílica a lipofílica y el proceso de heterofloculación puede ocurrir dependiendo del área del sólido disponible para la atracción del surfactante. Por otro lado, las emulsiones no iónicas no rompen mediante la adición de la arena, pues no existen fuerzas de atracción electrostática entre el surfactante y el sólido que desestabilicen la emulsión. Todos los sistemas que se estudian están en equilibrio, ellos contienen un surfactante catiónico o un surfactante no iónico, asfalto, arena entre 20 y 53 μm. Dos métodos de ruptura son utilizados."
Solid Particle Erosion of Thermal Spray and Physical Vapour Deposition Thermal Barrier Coatings (2012)

This chapter contains sections titled: Introduction Experimental Results and Discussion Conclusions Acknowledgements
Supplementary Figure S5 from Expression of Genes Involved in Vascular Morphogenesis and Maturation Predicts Efficacy of Bevacizumab-Based Chemotherapy in Patients Undergoing Liver Resection (2023)

&lt;p&gt;Kaplan Meier curves for EGFL7 mRNA levels in CLM for RFS (complete response, CR)&lt;/p&gt;
The First Allylation of Imines with Allyltrichlorosilanes Using Neutral Coordinate-Organocatalysts (2003)

Imines derived from aldehydes and 2-aminophenols reacted with allyltrichlorosilanes in the presence of DMF, HMPA, or pyridine N-oxide as a neutral coordinate-organocatalyst to afford the corresponding homoallylic amines in high yields with high stereoselectivity; this is the first example of allylation of imines with allyltrichlorosilanes.
Viewpoint Obesity hormone leptin: a new target in breast cancer? (2007)

Leptin is a multifunctional hormone produced mainly by the adipose tissue and involved in the regulation of food intake and energy balance. In addition, leptin can stimulate mitogenic and angiogenic processes in peripheral organs. Because leptin levels are elevated in obese individuals and excess body weight has been shown to increase breast cancer risk in postmenopausal women, attempts have been made to evaluate whether leptin can promote breast cancer. Data obtained in cell and animal models and analyses of human breast cancer biopsies indeed suggest such an involvement. Furthermore, a recent report clearly shows that targeting leptin signaling may reduce mammary carcinogenesis. Thus, leptin should become a new attractive target in breast cancer. Obesity has been shown to increase breast cancer risk in postmenopausal women by 30 % to 50 % [1]. Moreover, high