gebhart/patrepeval huggingface dataset:
Proceedings of the 19th ACM Conference on Computer-Supported Cooperative Work & Social Computing (2016)

This year the CSCW conference received 571 submitted papers from 1507 unique authors located in 45 different countries covering six continents. CSCW uses a two-phase review process designed to help authors improve promising papers by revising them in response to reviews. Papers are initially reviewed by three or more expert reviewers, including both members of our program committee and outside reviewers selected for each paper. Those that are judged as having high potential are asked to revise their papers and resubmit them for a second round of review. At least two program committee members review each revised submission (along with the external reviewers in all cases requesting major revisions) to make a final recommendation to the entire program committee. This year, we had a program committee of 81 expert CSCW researchers from all over the world, who managed the process of recruiting reviewers, writing reviews and meta-reviews, and making decisions about papers. We are particularly excited that we this year managed to have the program committee meeting in Europe for the first time. We met in August in Copenhagen, Denmark organized in collaboration with Computer Science Department (DIKU) at University of Copenhagen and the IT University of Copenhagen (ITU). Of the 571 papers submitted, 242 papers (43%) were invited to revise and undergo a second round of review. 228 revised papers were actually submitted, and we accepted 142 papers. This means that the acceptance rate for CSCW 2016 is 25% overall (and 62% of those which were re-submitted).
W+W− boson pair production in proton-proton collisions at s=13  TeV (2020)

A measurement of the ${W}^{+}{W}^{\ensuremath{-}}$ boson pair production cross section in proton-proton collisions at $\sqrt{s}=13\text{ }\text{ }\mathrm{TeV}$ is presented. The data used in this study are collected with the CMS detector at the CERN LHC and correspond to an integrated luminosity of $35.9\text{ }\text{ }{\mathrm{fb}}^{\ensuremath{-}1}$. The ${W}^{+}{W}^{\ensuremath{-}}$ candidate events are selected by requiring two oppositely charged leptons (electrons or muons). Two methods for reducing background contributions are employed. In the first one, a sequence of requirements on kinematic quantities is applied allowing a measurement of the total production cross section, $117.6\ifmmode\pm\else\textpm\fi{}6.8\text{ }\text{ }\mathrm{pb}$, which agrees well with the theoretical prediction. Fiducial cross sections are also reported for events with zero or one jet, and the change in the zero-jet fiducial cross section with the jet transverse momentum threshold is measured. Normalized differential cross sections are reported within the fiducial region. A second method for suppressing background contributions employs two random forest classifiers. The analysis based on this method includes a measurement of the total production cross section and also a measurement of the normalized jet multiplicity distribution in ${W}^{+}{W}^{\ensuremath{-}}$ events. Finally, a dilepton invariant mass distribution is used to probe for physics beyond the standard model in the context of an effective field theory, and constraints on the presence of dimension-6 operators are derived.
Effect of Ball Milling and KOH Activation on Electrochemical Properties of Pitch‐based Carbon Fibers (2015)

Ball‐milled and chemically activated pitch‐based carbon fibers ( PCF ) were prepared for use as electrode materials. Ball milling altered the structure of PCF from fibers to micro‐sized particles with loss of porosity. In contrast, chemical activation using KOH facilitated the development of pore structures. The supercapacitive behavior of treated PCF was assessed using cyclic voltammetry and galvanostatic charge/discharge experiments in 6 M KOH electrolytic solution. BAPCF900 , the sample subjected to combined ball milling and chemical treatment, activated at 900 °C, exhibited a specific capacitance of about 80 F/g at a current density of 0.2 A/g; this good capacitance is attributed to a specific surface area of 803 m 2 /g and a total pore volume of 0.352 cm 3 /g, and is related to the appropriate pore structure for electrode application, comprising mesopores and micropores.
Tuning transport across MoS2/graphene interfaces via as-grown lateral heterostructures (2020)

Abstract An unexploited property of graphene-based heterojunctions is the tunable doping of the junction via electrostatic gating. This unique property may be key in advancing electronic transport across interfaces with semiconductors. Here, we engineer transport in semiconducting TMDs by constructing a lateral heterostructure with epitaxial graphene and tuning its intrinsic doping to form a p–n junction between the graphene and the semiconducting TMDs. Graphene grown on SiC (epitaxial graphene) is intrinsically doped via substrate polarization without the introduction of an external dopant, thus enabling a platform for pristine heterostructures with a target band alignment. We demonstrate an electrostatically tunable graphene/MoS 2 p–n junction with &gt;20× reduction and &gt;10× increased tunability in contact resistance ( R c ) compared with metal/TMD junctions, attributed to band alignment engineering and the tunable density of states in graphene. This unique concept provides improved control over transport across 2D p – n junctions.
Protective Effect of Celastrol on Gentamicin-induced Nephrotoxicity in Mice (2020)

Background and Objectives: Gentamicin is an aminoglycoside antibiotic used to cure serious bacterial infections, although its usefulness is restricted due to the risk of nephrotoxicity. Celastrol is an active component of the Chinese medicine Tripterygium wilfordii, which has been demonstrated to be a potent anticancer agent in preclinical studies of cancer and inflammatory disorders. This study was aimed to investigate the effect of celastrol on gentamicin nephrotoxicity in mice and to explore the underlying mechanisms involved. Materials and Methods: Serum creatinine and blood urea-nitrogen concentrations, oxidative stress, inflammatory cytokines and histopathological changes of kidney tissues were monitored. Nephrotoxicity was detected after 50 mg kgG 1 daily dose of gentamicin intraperitoneal injection (IP) for 7 consecutive days. Mice were randomly divided into 5 groups. Group 1 received normal saline containing 5% dimethyl sulfoxide, IP, at the same volume as the drugs received by other groups. Group 2 received gentamicin (50 mg/kg/day, IP). Groups 3 and 4th received gentamicin (50 mg kgG 1 , IP) with celastrol (1 or 5 mg/kg/day, IP, respectively), celastrol was given 30 min before the gentamicin injection. Finally, group-5 received celastrol only (5 mg kgG 1 , IP). Results: Celastrol significantly ameliorated gentamicin-induced elevation of serum creatinine, blood urea nitrogen and uric acid. It significantly reduced renal tissue malondialdehyde and restored activity of renal glutathione and superoxide dismutase. Moreover, it reduced TNF-", IL-6, IL-$1 and NF-Bp65 and partially recovered cellular damage, including distorted glomerular capillaries and tubular dilation with epithelial atrophy corresponding with dosage level. Conclusion: Celastrol could protect against gentamicin-induced acute kidney injury, possibly through suppressing oxidative stress and pro-inflammatory biomarkers and improving renal functional disturbances.
Milk Oligosaccharides over Time of Lactation from Different Dog Breeds (2014)

The partnership of humans and dogs goes back to over 10'000 years, yet relatively little is known about a dog's first extrauterine nutrition particularly when it comes to milk oligosaccharides. We set out to identify and quantify milk oligosaccharides over the course of lactation from different dog breeds (Labrador retriever, Schnauzer and 3 Alaskan husky crossbreeds). To this end, 2 different chromatographic methods with fluorescence and mass spectrometry detection were developed and one was validated for quantification. Besides lactose and lactose-sulphate, we identified 2 different trisaccharides composed of 3 hexose units, 39sialyllactose (39SL), 69sialyllactose (69SL), 29fucosyllactose (29FL), and a tetrasaccharide composed of 2 hexoses, an N-acetylhexosamine and a deoxyhexose. 39SL was present at the highest levels in milk of all dog breeds starting at around 7.5 g/L and dropping to about 1.5 g/L in the first 10 days of lactation. 69SL was about 10 times less abundant and 29FL and the tetrasaccharide had rather varying levels in the milk of the different breeds with the tetrasaccharide only detectable in the Alaskan husky crossbreeds. The longitudinal and quantitative data of milk oligosaccharides from different dog breeds are an important basis to further our understanding on their specific biological roles and also on the specific nutritional requirements of lactating puppies.
Utilization of poly(vinylchloride) and poly(vinylidenefluoride) as macroinitiators for ATRP polymerization of hydroxyethyl methacrylate: Electroanalytical and graft‐copolymerization studies (2015)

ABSTRACT The utilization of poly(vinylchloride) (PVC) and poly(vinylidenefluoride) (PVDF) as macroinitiators for atom transfer radical polymerization (ATRP) of hydroxyethyl methacrylate (HEMA) was studied performing electroanalytical investigations and “grafting from” experiments to evaluate the potential modification of such commercial polymers by ATRP. The study was performed changing various operating parameters such as the nature of the copper salt, the ligand, the solvent, the temperature, and the reaction time. Electroanalytical data suggest that PVC can be easily activated by both CuCl/Tris(2‐pyridylmethyl)amine (TPMA) and CuCl/Tris[2‐(dimethylamino)ethyl]amine (Me 6 TREN), two catalytic systems widely adopted for ATRP reactions, in a wide range of operating conditions. PVDF is more difficult to be activated, due to the higher strength of the CF bond. In particular, the utilization of high temperature and of a more reductant redox couple such as Cu(I)Me 6 TREN/Cu(II)Me 6 TREN was needed to achieve a significant degree of grafting. © 2015 Wiley Periodicals, Inc. J. Polym. Sci., Part A: Polym. Chem. 2015 , 53 , 2524–2536
Critical Role of Type III Interferon in Controlling SARS-CoV-2 Infection in Human Intestinal Epithelial Cells (2020)

Severe acute respiratory syndrome-related coronavirus-2 (SARS-CoV-2) is an unprecedented worldwide health problem that requires concerted and global approaches to stop the coronavirus 2019 (COVID-19) pandemic. Although SARS-CoV-2 primarily targets lung epithelium cells, there is growing evidence that the intestinal epithelium is also infected. Here, using both colon-derived cell lines and primary non-transformed colon organoids, we engage in the first comprehensive analysis of the SARS-CoV-2 life cycle in human intestinal epithelial cells (hIECs). Our results demonstrate that hIECs fully support SARS-CoV-2 infection, replication, and production of infectious de novo virus particles. We found that viral infection elicits an extremely robust intrinsic immune response where interferon-mediated responses are efficient at controlling SARS-CoV-2 replication and de novo virus production. Taken together, our data demonstrate that hIECs are a productive site of SARS-CoV-2 replication and suggest that the enteric phase of SARS-CoV-2 may participate in the pathologies observed in COVID-19 patients by contributing to increasing patient viremia and fueling an exacerbated cytokine response.
Tunable Slotted Fabry-Pérot Lasers for Agile Optical Networks (2011)

We present work carried out to examine the characteristics and transmission performance of a three section tunable slotted Fabry-Pérot laser. The low cost laser exhibits many attractive properties including low linewidth and fast switching speeds.
Melanotropin Receptors and Signal Transduction (2018)

This chapter focuses on α-melanocyte-stimulating hormone (α-MSH) and its known melanotropic activities within the framework of peptide hormone-receptor interactions. The development of MSH-based molecular probes, that is, superpotent agonists, radiolabeled analogs, photoaffinity derivatives, and melanotropin-macromolecular conjugates to evaluate the mechanism(s) of action of a-MSH has been an important hallmark in the progress of research on MSH receptors and signal transduction. Peptide hormones are physiologically active molecules important in a variety of endocrine, neuroregulatory, and other cellular processes. Evidence for such MSH receptors was first indicated by studies on covalent MSH-macromolecular complexes which would unlikely be transported across the plasma membrane. Future structure-activity studies utilizing such MSH radioreceptor assays are expected to have several applications in the examination of the molecular basis of MSH binding and signal transduction. Pharmacological characterization of receptors has generally focused on the objectives of demonstrating ligand specificity and quantitatively determining ligand affinities, saturability, and reversibility by the application of radiolabeled ligand derivatives.
Clinical performance of the VITROS® Immunodiagnostic products anti-SARS-CoV-2 total antibody assay (2020)

Background/Case Studies: This study was designed to assess the analytical and clinical performance of the VITROS Immunodiagnostic Products Anti-SARS-CoV-2 Total assay (VITROS SARS-CoV-2 Total) on the VITROS ECi/ECiQ/ 3600 Immunodiagnostic Systems and the VITROS 5600/ XT 7600 Integrated Systems Study Design/Methods: Antibody detection in VITROS SARS-CoV-2 Total assay is achieved using SARS-CoV-2 spike S1 protein antigen coated onto the well Sample is added to the coated wells in the first stage of the reaction, and SARS-CoV-2 antibody from the sample is captured After washing, HRP conjugated SARS-CoV-2 spike S1 protein antigens are added Following a final wash, bound HRP conjugates are detected using the VITROS signal reagent The assay cut-off for VITROS SARS-CoV-2 Total is 1 00;values equal to or above the cut-off are Reactive for SARSCoV- 2 antibodies and values below 1 00 are Non-reactive Clinical testing was performed at the Ortho Clinical Diagnostics R&D lab located in Rochester, NY, USA Clinical sensitivity was evaluated using 86 samples from 86 individuals diagnosed as SARS-CoV-2 positive by PCR, frozen and then sent to the R&D lab for evaluation Date of reported onset of symptoms were reported for 69 of the 86 samples Clinical specificity was evaluated using frozen serum and EDTA plasma samples from 400 healthy blood donors collected prior to 2019 and the COVID-19 pandemic Data were analyzed to calculate the positive percent agreement (PPA) to PCR positivity and the clinical specificity of the assay A five-day precision study was performed on a 12-member panel including 4 non-reactive, 1 cutoff, 3 weakly reactive and 3 moderately reactive samples using one reagent kit lot and one analyzer Analytical specificity was assessed by testing patient samples known to include potentially interfering substances and potentially cross-reacting subgroups Results/Findings: The sensitivity of VITROS SARSCoV- 2 Total was 100 0% (49/49, 95% CI: 92 7-100 0%) for samples collected >8 days after onset of symptoms were reported Specificity in the blood donor population for VITROS SARS-CoV-2 Total was 100% (400/400, 95% CI: 99 1-100 0%) The 5-day precision study demonstrated within calibration precision in samples with results ≥ 0 50 S/C ranging from 3 1% to 6 1% Other disease states and potentially interfering substances were shown to not impact test results Conclusions: The VITROS Anti-SARS-CoV-2 Total assay demonstrates excellent clinical sensitivity and specificity
Abstract 087: Human Stomach Cell Gastrin Inhibits Renal NHE3 and NaKATPase in Concert With the Renal D1R (2015)

The digestive track secretes gastrin in response to sodium ingestion stimulating increased renal sodium excretion. We previously showed that gastrin secreted by human colon cancer cells (SW626) can bind to cell surface cholecystokinin receptors on renal proximal tubule cells (RPTC), modulating the natriuretic dopaminergic system. We tested the hypothesis that a similar gastro/renal axis exists in humans. Novel human stomach antrum G-cell lines from 6 separate individuals were isolated and each shown to express gastrin mRNA and protein, and bind Phaseolus vulgaris Leucoagglutinin (PHA-l) by fluorescence lectin affinity (marker for gastrin secreting cells). It was determined that the D1 receptor (D1R) is also found on G-Cells. In human stomach tissue, gastrin expression was increased by Fenofibrate treatment, (PPARα agonist, p= 0.07, in 3 live ex-vivo cultured human stomachs). Moreover, we tested the effect of gastrin on CCKB2 receptors in human RPTC. Gastrin (100 nM 15 min.) increased RPTC phospholipace-C (PLC) activity by 1.07± 0.01 fold, N=35, p&lt;0.0001, using a PLC-FRET biosensor, CYPHR, but did not increase cAMP levels using the specific cAMP-FRET biosensor, ICUE-YR. Both gastrin and SKF83822 (100 nM, a cAMP specific D1R agonist, 15 min) alone reduced sodium influx into RPTC via NHE3 (from VEH 100± 4.7% to 73.5± 6.2% or 74.1± 4.3% respectively N=6, p&lt;0.05), but gastrin along with SKF83822 decreased sodium influx more than either alone (57.2 ± 5.8% N=6, p&lt;0.05). Sodium efflux via NaKATPase was reduced by SKF83822 (from VEH 100± 3.9% to 84.2± 3.3%, N=6, p&lt;0.05), but not gastrin alone, however SKF83822 along with gastrin reduced sodium efflux more than SKF83822 alone (72.3±5.1% vs N=6, p&lt;0.05). Additionally we found that Angiotensin II (AngII, 10 nM, 15 min.) increased NHE3 activity (12.3± 3.6% N=6, p&lt;0.01) and this increase was completely blocked by gastrin (N=6, p&lt;0.01). The PLC inhibitor U73122 reversed the inhibitory effect of gastrin on NHE3 and NaKATPase. Gastrin was also found to decrease the amount of fluorescent AngII binding to RPTCs (27.4± 6.1% N=6, p&lt;0.01) and this decrease was completely blocked by U73122. Thus, both stomach gastrin and the renal D1R inhibit NHE3 and NaKATPase, to increase sodium elimination from the body after salt is ingested.
Selection of immunoglobulin elbow region mutations impacts interdomain conformational flexibility in HIV-1 broadly neutralizing antibodies (2019)

Somatic mutations within antibody variable and framework regions (FWR) can alter thermostability and structural flexibility, but their impact on functional potency is unclear. Here we study thermostability and use molecular dynamics (MD) simulations to assess the role of FWR mutations during maturation of HIV-1 broadly neutralizing antibodies (bnAbs). The tested bnAbs show lower thermostability than their unmutated ancestor antibodies. FWR mutations in the Fab elbow region are frequently observed in HIV-1 bnAbs and MD simulations show that such FWR mutations alter interdomain flexibility in two HIV-1 bnAbs. In a CD4-binding site lineage, reversion mutations result in a loss of neutralization potency in an early intermediate and affinity-matured bnAb against autologous and heterologous Tier-2 viruses, respectively. Elbow region reversion mutations in a glycan-V3 bnAb modestly reduces potency against an autologous virus isolate. Thus, selection of mutations in the Fab elbow region impacts interdomain conformational flexibility and paratope plasticity during bnAb development.
Surprisingly Efficient Catalytic Cr-Mediated Coupling Reactions (2005)

[reaction: see text] With use of 1 mol % of Cr catalyst 5, surprisingly efficient Cr-mediated couplings of aldehydes with various types of nucleophiles have been realized. The catalyst set of Cr catalyst 5 and Ni catalyst 4 is used for alkenylation, alkynylation, and arylation, whereas the catalyst set of Cr catalyst 5 and CoPc (cobalt phthalocyanine) is used for 2-haloallylation, alkylation, and propargylation. Only the Cr catalyst 5 is required for allylation. The reaction rates in DME and THF have been found significantly faster than that in MeCN.
Supplementary Figures 1 - 11 from A Genetic Mouse Model of Invasive Endometrial Cancer Driven by Concurrent Loss of Pten and Lkb1 Is Highly Responsive to mTOR Inhibition (2023)

&lt;p&gt;Supplementary Figure 1. Representative images of metastases found in the liver (left panel) and peritoneal wall (right panel) of Pten loxp/loxp Lkb1loxp/loxp female mice bearing Pten Lkb1-deficient endometrial tumors. Supplementary Figure 2. Genotyping of endometrial tumors for the recombined alleles of Pten (A) and Lkb1 (B). Genomic DNAs from Pten Lkb1-deficient endometrial tumors (lanes 1â€“4) or mouse tail (lanes 5) were extracted. PCR analysis was done as previously described (1, 2). Supplementary Figure 3. Representative images of immunohistochemical staining of Pten (A) and Lkb1 (B) proteins in Pten Lkb1-deficient endometrial tumors counterstained with hematoxylin. Bars, 25Î¼M. Normal uterus was shown as a control. Supplementary Figure 4. Representative histopathology images of normal uterus (A) and precursor endometrial lesions (B) from Pten loxp/loxp Lkb1 loxp/loxp female mice with endometrium-specific co-deletion of Pten and Lkb1 (2 weeks post intrauterine injection of Ade-Cre). Scale bars, 25Î¼M. Supplementary Figure 5. Representative images of histopathology of endometrial lesions from Pten loxp/loxp female mice with endometrium-specific deletion of Pten. Mice were sacrificed 10 months post intrauterine injection of Ade-Cre. Scale bars, 50Î¼M. Supplementary Figure 6. Representative histopathology images of endometrial lesions from Lkb1loxp/loxp female mice with endometrium-specific deletion of Lkb1. Mice were sacrificed 10 months post intrauterine injection of Ade-Cre. Scale bars, 100Î¼M. Supplementary Figure 7. Representative images of immunohistochemical staining of CK8 in Pten Lkb1-deficient endometrial tumors. Scale bars, 50Î¼M (left panel); 25Î¼M (right panel). Supplementary Figure 8. Representative histopathology images of metastases found in the lungs of Ptenloxp/loxp Lkb1loxp/loxp female mice bearing Pten Lkb1-deficient endometrial tumors. Bars, 50Î¼M. Supplementary Figure 9. Representative histopathology image of Pten Lkb1-deficient endometrial cancer lesions with desmoplastic stromal response. Scale bar, 25Î¼M. Supplementary Figure 10. Representative images of immunohistochemical staining of proteins as indicated in normal uterus (upper panels, A and B) and Pten Lkb1-deficient endometrial tumors (lower panels, A and B). Scale bars, 25Î¼M.Supplementary Figure 11. Western blot analysis of LKB1 expression in ETN-1 and HEC108 cells with stable expression of vector or flag-tagged LKB1 wild-type. Vinculin was used a loading control.&lt;/p&gt;