gebhart/patrepeval huggingface dataset:
Cited2is required both for heart morphogenesis and establishment of the left-right axis in mouse development (2005)

Establishment of the left-right axis is a fundamental process of vertebrate embryogenesis. Failure to develop left-right asymmetry leads to incorrect positioning and morphogenesis of numerous internal organs, and is proposed to underlie the etiology of several common cardiac malformations. The transcriptional modulator Cited2 is essential for embryonic development: Cited2-null embryos die during gestation with profound developmental abnormalities, including cardiac malformations, exencephaly and adrenal agenesis. Cited2 is also required for normal establishment of the left-right axis; we demonstrate that abnormal heart looping and right atrial and pulmonary isomerism are consistent features of the left-right-patterning defect. We show by gene expression analysis that Cited2 acts upstream of Nodal, Lefty2 and Pitx2 in the lateral mesoderm, and of Lefty1 in the presumptive floor plate. Although abnormal left-right patterning has a major impact on the cardiac phenotype in Cited2-null embryos, laterality defects are only observed in a proportion of these embryos. We have therefore used a combination of high-resolution imaging and three-dimensional (3D) modeling to systematically document the full spectrum of Cited2-associated cardiac defects. Previous studies have focused on the role of Cited2 in cardiac neural crest cell development, as Cited2 can bind the transcription factor Tfap2, and thus affect the expression of Erbb3 in neural crest cells. However, we have identified Cited2-associated cardiac defects that cannot be explained by laterality or neural crest abnormalities. In particular, muscular ventricular septal defects and reduced cell density in the atrioventricular (AV) endocardial cushions are evident in Cited2-null embryos. As we found that Cited2 expression tightly correlated with these sites, we believe that Cited2 plays a direct role in development of the AV canal and cardiac septa. We therefore propose that, in addition to the previously described reduction of cardiac neural crest cells, two other distinct mechanisms contribute to the spectrum of complex cardiac defects in Cited2-null mice; disruption of normal left-right patterning and direct loss of Cited2 expression in cardiac tissues.
Preparing clinical-grade myeloid dendritic cells by electroporation-mediated transfection of in vitro amplified tumor-derived mRNA and safety testing in stage IV malignant melanoma (2006)

Standardized preparation of viable clinical-grade DCs transfected with tumor-derived and in vitro amplified mRNA is feasible and their administration is safe.
Mechanism for priming DNA synthesis by yeast DNA Polymerase α (2013)

The DNA Polymerase α (Pol α)/primase complex initiates DNA synthesis in eukaryotic replication. In the complex, Pol α and primase cooperate in the production of RNA-DNA oligonucleotides that prime synthesis of new DNA. Here we report crystal structures of the catalytic core of yeast Pol α in unliganded form, bound to an RNA primer/DNA template and extending an RNA primer with deoxynucleotides. We combine the structural analysis with biochemical and computational data to demonstrate that Pol α specifically recognizes the A-form RNA/DNA helix and that the ensuing synthesis of B-form DNA terminates primer synthesis. The spontaneous release of the completed RNA-DNA primer by the Pol α/primase complex simplifies current models of primer transfer to leading- and lagging strand polymerases. The proposed mechanism of nucleotide polymerization by Pol α might contribute to genomic stability by limiting the amount of inaccurate DNA to be corrected at the start of each Okazaki fragment. DOI:http://dx.doi.org/10.7554/eLife.00482.001.
Components of homologous recombination and translesion synthesis (TLS) in pemetrexed/cisplatin-treated non-small-cell lung cancer (NSCLC) patients (p). (2013)

11028 Background: REV3, the catalytic subunit of the TLS polymerase ξ, can continue replication past DNA adducts. Depletion of REV3 sensitizes A549 lung cancer cells to cisplatin. REV3 expression is part of a gene signature that predicted pemetrexed sensitivity in 17 NSCLC cell lines. Homologous recombination and TLS pathways have non-redundant functions in response to cisplatin. We hypothesized that low REV3 mRNA expression – alone or in combination with low expression levels of genes involved in homologous recombination – could correlate with better outcome to cisplatin/pemetrexed in NSCLC. Methods: REV3, BRCA1, RAP80, TS and AEG1 mRNA was examined by quantitative RT-PCR and categorized by terciles. Expression of each gene was correlated with outcome in 47 cisplatin/pemetrexed-treated NSCLC p. Results: 63.8% male; 47% smokers; 80.9% ECOG PS 1; 80.8% adenocarcinoma. Overall response rate was 51%, with no differences according to expression levels of any of the genes. Progression-free survival (PFS) for p with low, intermediate and high BRCA1 levels was 13.4, 5.5 and 3.9 months (m), respectively (P=0.005). Similar differences in PFS were observed according to TS (P=0.003) and AEG1 (P&lt;0.001) expression. Hazard ratio (HR) for PFS for p with high BRCA1 levels was 4 (P=0.002). Overall survival (OS) for p with low, intermediate and high BRCA1 levels was 29.7, 7.4 and 6.3 m, respectively (P=0.05). Similar differences in OS were observed according to TS (P=0.005) and AEG1 (P=0.001) expression.HR for OS for p with high BRCA1 levels was 3.6 (P=0.004). There were no differences in PFS or OS according to REV3 or RAP80 levels. However, the joint effect of BRCA1 and REV3 was significant for predictive modeling. PFS for p with low, intermediate and high levels of both genes was 14.9, 7.2 and 2.8 m, respectively (P=0.001). OS for p with low, intermediate and high levels of both genes was 29.7, 7.8 and 6.3 m, respectively (P=0.04). Conclusions: Low BRCA1 expression predicts longer PFS and OS in pemetrexed/cisplatin-treated NSCLC p. Low TS and AEG1 levels have similar predictive value. Analysis of these genes could be useful for customizing pemetrexed/platinum chemotherapy.
Structural execution indexing and its applications (2008)

Execution indexing uniquely identifies a point in an execution. Execution indices can show correlations between points in an execution and correspondence between points across multiple executions. They can be used to organize program profiles; they can precisely identify the point in a re-execution that corresponds to a point in an original execution; furthermore, they provide a precise basis for dynamic analysis of program properties.
Domain-Resolved Photoelectron Microscopy and µm-Scale Momentum-Resolved Photoelectron Spectroscopy of Graphite Armchair Edge Facet (2022)

The photoelectron momentum microscope is a device that combines a photoelectron emission microscope with an electron energy analyzer to achieve both µm-scale valence band mapping and momentum-selective photoelectron microscopy, i.e., µm-VB mapping and photoelectron momentum microscopy. These methods have been used in the local electronic structure measurements on graphite crystal surfaces. An armchair-type edge-fringed facet with a width of several µm was revealed on the surface of the cleaved graphite. This edge facet was characterized by µm-VB mapping. The normal direction of the facet differs from that of the terrace area by around 20°. The π-band splitting due to the interaction between the layers was the same for the edge facet and the terrace region, showing that the interlayer distances of the two regions are identical. A domain-chosen microscopic image is obtained by transforming the photoelectron distribution of a selected momentum zone of reciprocal space into real space. By detecting the photoelectrons from the edge facet at the M symmetry point, a microscopic imaging of the edge facet selectively accentuated became feasible.
Integrated multi-material portable 3D-printed platform for electrochemical detection of dopamine and glucose. (2022)

3D-printing has become a fundamental part of research in many areas of investigation since it provides rapid and personalized production of parts that meet very specific user needs. Biosensing is not an exception, and production of electrochemical sensors that can detect a variety of redox mediators and biologically relevant molecules has been widely reported. However, most 3Dprinted electrochemical sensors detailed in the literature rely on big, individual, single-material electrodes that require large sample volumes to perform effectively. Our work exploits multi-material fused filament fabrication 3D-printing to produce a compact electrochemical sensor. The device features a built-in well with a volume of approximately 100 μL where the sample is deposited and analyzed via cyclic voltammetry, differential pulse voltammetry, and chronoamperometry to assess sensor performance and sensitivity. The integrated 3D-printed platform successfully detects electrochemical activity for hexaammineruthenium (III) chloride and potassium ferricyanide (0.1 mM to 2 mM in 100 mM KCl), dopamine (50 μM to 1 mM in 1xPBS), and glucose via mediator-free and mediated amperometric glucose oxidase enzyme-based sensors (1 mM to 12 mM in 1xPBS), indicating good acceptance of biological modification. These results reveal the exciting potential of multi-material 3D-printing and how it can be used for the rapid development of efficient, small, integrated, personalized electrochemical biosensors.
Interactions between Cytochrome c and DNA Strands Self-Assembled at Gold Electrode (2007)

In this work, we reported the investigation on the interaction between DNAstrands self-assembled at gold electrodes and an electron transfer protein, cytochrome c. Weobserved that cytochrome c exhibited well-defined electrochemistry in both double-strandedand single-stranded DNA films. This suggested that the electron transfer reaction ofcytochrome c arose possibly due to the electron hopping along DNA strands rather thanwiring along the double helix. We also compared the heterogeneous electron transfer rate ofcytochrome c with that of a ruthenium complex, which further confirmed this mechanism.
Optimal operation of a waste incineration plant for district heating (2009)

A case study of a waste incineration plant operating close to optimality by using simple feed-back control schemes is presented. Using off-line optimization the structure of the optimization problem is exploited and a set of variables is found, such that if the process is controlled with those variables are at their setpoints, operation is near-optimal.
A multiaxial stretchable interconnect using liquid-alloy-filled elastomeric microchannels (2008)

We report on the fabrication and characterizations of a multiaxial stretchable interconnect using room-temperature liquid-alloy-filled elastomeric microchannels. Polydimethylsiloxane (PDMS) microchannels coated at the bottom with a gold wetting layer were used as the reservoirs which were subsequently filled by room-temperature liquid alloy using microfluidic injection technique. Using a diamond-shaped geometry to provide biaxial performance, a maximum stretchability of 100% was achieved (ΔR=0.24Ω). Less than 0.02Ω resistance variation was measured for 180° bending. Active electronics, light emitting diode, was also integrated onto the PDMS substrate with stretchable interconnects to demonstrate stable electrical connection during stretching, bending, and twisting.
Feature tracking cardiac magnetic resonance imaging for the evaluation of myocardial strain in patients with dilated cardiomyopathy and in healthy controls (2013)

Background In clinical routine, quantification of myocardial strain using CMR tagging is currently the gold standard. Additional pulse sequences for the generation of tagged images and specialized software for the quantification of myocardial strain is necessary, so that alternative ways using conventional steady-state-free-precession (SSFP) sequence images would be preferable. This advantage may be ensured by feature tracking imaging algorithm, a novel method of two-dimensional deformation analysis. To quantify myocardial deformation with two-dimensional feature tracking cardiac magnetic resonance (CMR) in patients with heart failure due to nonischemic cardiomyopathy and in healthy controls. Methods Eighty-eight patients with dilated cardiomyopathy and thirty healthy subjects were examined in a 1.5T CMRscanner. SSFP cine sequences of the four chamber view and mid-ventricular short axis view were analyzed using feature tracking imaging software (2D CPA MR©, TomTec Imaging Systems GmbH). Generated parameters of the myocardial quantification were circumferential and longitudinal strain, respectively. Furthermore, patients were divided in subgroups classified by left-ventricular ejection-fraction LV-EF≤35% and EF>35% and in patients with the presence or absence of late-gadolinium enhancement (LGE), respectively. Results In patients with dilated cardiomyopathy, close correlation were observed for the LV-EF with circumferential strain (r^2=0.8, p 35% and with LV-EF ≤35% (p<0.0001). In addition, patients with LGE yielded significant lower circumferential and longitudinal strain values, compared to those without LGE (p<0.0001 and p=0.02, respectively). Conclusions Feature tracking imaging determines global myocardial function in patients with dilated cardiomyopathy and provides further insight into the underlying remodeling processes. Further investigation is necessary to analyze the impact of this new method on clinical outcome. Funding none
A Triptycene‐Based Approach to Solubilising Carbon Nanotubes and C60 (2012)

We describe herein the synthesis of a triptycene-based surfactant designed with the ability to solubilise single-walled carbon nanotubes (SWNTs) and C(60) in water through non-covalent interactions. Furthermore, an amphiphilic naphthalene-based surfactant with the same ability to solubilise SWNTs and C(60) has also been prepared. The compounds synthesised were designed with either two ionic or non-ionic tails to ensure a large number of supramolecular interactions with the solvent, thereby promoting strong solubilisation. The surfactants produced stable suspensions in which the SWNTs are dispersed and the surfactant/SWNT complexes formed are stable for more than one year. UV/Vis/NIR absorption spectroscopy, TEM and AFM were employed to probe the solubilisation properties of the dispersion of surfactants and SWNTs in water.
Erratum to: In vitro activity of cefiderocol and comparators against isolates of Gram-negative pathogens from a range of infection sources: SIDERO-WT-2014–2018 studies in France (2021)

[This corrects the article DOI: 10.1093/jacamr/dlab081.].
Energy-Efficient 100-Gbps PAM Transmissions Using a 1.3-µm Membrane DML-on-Silicon (2018)

70-Gbps NRZ, 112-Gbps PAM-4, and 100-Gbps PAM-8 are demonstrated by directly-modulating an O-band membrane laser-on-silicon, over a 2-km single-mode fiber link under low-complexity nonlinear equalization. The laser was driven at a bias of only 11.5-mA with power consumption ~7x times lower than conventional DMLs.
Preparation of novel chitosan-zeolite composites for purification of industrial and urban waters (2007)

International audience
A comparison between similarity matrices for principal component analysis to assess population stratification in sequenced genetic data sets (2022)

Genetic similarity matrices are commonly used to assess population substructure (PS) in genetic studies. Through simulation studies and by the application to whole-genome sequencing (WGS) data, we evaluate the performance of three genetic similarity matrices: the unweighted and weighted Jaccard similarity matrices and the genetic relationship matrix. We describe different scenarios that can create numerical pitfalls and lead to incorrect conclusions in some instances. We consider scenarios in which PS is assessed based on loci that are located across the genome ('globally') and based on loci from a specific genomic region ('locally'). We also compare scenarios in which PS is evaluated based on loci from different minor allele frequency bins: common (>5%), low-frequency (5-0.5%) and rare (<0.5%) single-nucleotide variations (SNVs). Overall, we observe that all approaches provide the best clustering performance when computed based on rare SNVs. The performance of the similarity matrices is very similar for common and low-frequency variants, but for rare variants, the unweighted Jaccard matrix provides preferable clustering features. Based on visual inspection and in terms of standard clustering metrics, its clusters are the densest and the best separated in the principal component analysis of variants with rare SNVs compared with the other methods and different allele frequency cutoffs. In an application, we assessed the role of rare variants on local and global PS, using WGS data from multiethnic Alzheimer's disease data sets and European or East Asian populations from the 1000 Genome Project.
A Sensitive and Specific Fluorescent RT-LAMP Assay for SARS-CoV-2 Detection in Clinical Samples (2022)

The raging COVID-19 pandemic has created an unprecedented demand for frequent and widespread testing to limit viral transmission. Reverse transcription loop-mediated isothermal amplification (RT-LAMP) has emerged as a promising diagnostic platform for rapid detection of SARS-CoV-2, in part because it can be performed with simple instrumentation. However, isothermal amplification methods frequently yield spurious amplicons even in the absence of a template. Consequently, RT-LAMP assays can produce false positive results when they are based on generic intercalating dyes or pH-sensitive indicators. Here, we report the development of a sensitive RT-LAMP assay that leverages on a novel sequence-specific probe to guard against spurious amplicons. We show that our optimized fluorescent assay, termed LANTERN, takes only 30 min to complete and can be applied directly on swab or saliva samples. Furthermore, utilizing clinical RNA samples from 52 patients with COVID-19 infection and 21 healthy individuals, we demonstrate that our diagnostic test exhibits a specificity and positive predictive value of 95% with a sensitivity of 8 copies per reaction. Hence, our new probe-based RT-LAMP assay can serve as an inexpensive method for point-of-need diagnosis of COVID-19 and other infectious diseases.
Shelf life indicators for encapsulated diazinon (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTShelf life indicators for encapsulated diazinonBaruch S. Shasha, Donald Trimnell, and Felix H. OteyCite this: J. Agric. Food Chem. 1981, 29, 5, 1099–1100Publication Date (Print):September 1, 1981Publication History Published online1 May 2002Published inissue 1 September 1981https://doi.org/10.1021/jf00107a055Request reuse permissions Article Views39Altmetric-Citations6LEARN 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 InReddit PDF (246 KB) Get e-Alertsclose Get e-Alerts
Antineoplastic activity of honey in an experimental bladder cancer implantation model: In vivo and in vitro studies (2003)

Bee honey is an effective agent for inhibiting the growth of T24, RT4, 253J and MBT-2 bladder cancer cell lines in vitro. It is also effective when administered intralesionally or orally in the MBT-2 bladder cancer implantation models. Our results are promising, and further research is needed to clarify the mechanisms of the antitumor activity of honey.
Retroperitoneoscopic Unroofing of a Renal Cyst Under Epidural Anesthesia (2001)

Laparoscopic surgery has routinely been performed under general anesthesia. Our first case of a large renal cyst treated successfully with retroperitoneoscopic unroofing under epidural anesthesia is presented here. Epidural anesthesia can be used for retroperitoneoscopic surgery if necessary.
Discovery of a Novel Series of Semisynthetic Vancomycin Derivatives Effective against Vancomycin-Resistant Bacteria (2010)

Novel semisynthetic vancomycin derivatives with antibacterial activity against vancomycin-resistant S. aureus (VRSA) were prepared. Replacement of Cl groups of vancomycin by Suzuki−Miyaura cross-coupling reaction, which gave the title compounds, is described for the first time. Introduction of a carbon substituent at the amino acid residue 2 of vancomycin led to an enhancement of antibacterial activity against vancomycin-resistant strains, whereas the additional introduction at the amino acid residue 6 resulted in a reduction in activity even against vancomycin-susceptible strains.
RECENT WORK IN BANTU PHILOLOGY1 (1905)

RECENT WORK IN BANTU PHILOLOGY Get access A. WERNER A. WERNER Search for other works by this author on: Oxford Academic Google Scholar African Affairs, Volume 5, Issue XVII, October 1905, Pages 59–71, https://doi.org/10.1093/oxfordjournals.afraf.a094851 Published: 01 October 1905
Research on the Fatigue-creep Rupture of Fastening Bolts of Ultra-supercritical Steam Turbine Cylinder Case (2007)

Loading of peak generator units were changed frequently. The fastening bolts of steam turbine cylinder case were in fatigue-creep interaction. It was important to study fatigue-creep interaction damage of fastening bolts under multiaxial stress. Fatigue-creep rupture experiments of Nimonic 80A uniaxial specimen and hollow bolts at 550°C were carried out. Fatigue-creep process was simulated by ABAQUS using Chaboche-Nouaihas fatigue creep model. It is indicated that fatigue-creep rupture of hollow bolt is different from simple creep rupture. Hollow bolt rupture of fatigue-creep is taking place at the position of the first screw thread root, where the stress is concentrated. A good coincidence comparing the result experiment with finite element calculation can be observed.
A new sustainable hydrogen clean energy paradigm (2018)

We analyze the feasibility of a novel, hydrogen fuel cell electric generator to provide power with zero noise and emissions for myriad ground based applications. The hydrogen fuel cell electric generator utilizes a novel, scalable apparatus that safely generates hydrogen (H2) on demand according to a novel method, using a controlled chemical reaction between water (H2O) and sodium (Na) metal that yields hydrogen gas of sufficient purity for direct use in fuel cells without risk of contaminating sensitive catalysts. The sodium hydroxide (NaOH) byproduct of the hydrogen producing reaction, is collected within the apparatus for later reprocessing by electrolysis, to recover the Na reactant. The detailed analysis shows that the novel, hydrogen fuel cell electric generator will be capable of meeting the clean power requirements for residential and commercial buildings including single family homes and light commercial establishments under a wide range of geographic and climatic conditions.