gebhart/patrepeval huggingface dataset:
On the Quenching of Semiconductor Quantum Dot Photoluminescence by Proximal Gold Nanoparticles (2007)

Luminescent quantum dots (QDs) were proven to be very effective fluorescence resonance energy transfer donors with an array of organic dye acceptors, and several fluorescence resonance energy transfer based biosensing assemblies utilizing QDs have been demonstrated in the past few years. Conversely, gold nanoparticles (Au-NPs) are known for their capacity to induce strong fluorescence quenching of conventional dye donors. Using a rigid variable-length polypeptide as a bifunctional biological linker, we monitor the photoluminescence quenching of CdSe-ZnS QDs by Au-NP acceptors arrayed around the QD surface, where the center-to-center separation distance was varied over a broad range of values (approximately 50-200 Angstrom). We measure the Au-NP-induced quenching rates for such QD conjugates using steady-state and time-resolved fluorescence measurements and examine the results within the context of theoretical treatments based on the Förster dipole-dipole resonance energy transfer, dipole-metal particle energy transfer, and nanosurface energy transfer. Our results indicate that nonradiative quenching of the QD emission by proximal Au-NPs is due to long-distance dipole-metal interactions that extend significantly beyond the classical Förster range, in agreement with previous studies using organic dye-Au-NP donor-acceptor pairs.
Complementary contrast media for metal artifact reduction in dual-energy computed tomography (2015)

Metal artifacts have been a problem associated with computed tomography (CT) since its introduction. Recent techniques to mitigate this problem have included utilization of high-energy (keV) virtual monochromatic spectral (VMS) images, produced via dual-energy CT (DECT). A problem with these high-keV images is that contrast enhancement provided by all commercially available contrast media is severely reduced. Contrast agents based on higher atomic number elements can maintain contrast at the higher energy levels where artifacts are reduced. This study evaluated three such candidate elements: bismuth, tantalum, and tungsten, as well as two conventional contrast elements: iodine and barium. A water-based phantom with vials containing these five elements in solution, as well as different artifact-producing metal structures, was scanned with a DECT scanner capable of rapid operating voltage switching. In the VMS datasets, substantial reductions in the contrast were observed for iodine and barium, which suffered from contrast reductions of 97% and 91%, respectively, at 140 versus 40 keV. In comparison under the same conditions, the candidate agents demonstrated contrast enhancement reductions of only 20%, 29%, and 32% for tungsten, tantalum, and bismuth, respectively. At 140 versus 40 keV, metal artifact severity was reduced by 57% to 85% depending on the phantom configuration.
Oxidative stress-driven parvalbumin interneuron impairment as a common mechanism in models of schizophrenia (2017)

Parvalbumin inhibitory interneurons (PVIs) are crucial for maintaining proper excitatory/inhibitory balance and high-frequency neuronal synchronization. Their activity supports critical developmental trajectories, sensory and cognitive processing, and social behavior. Despite heterogeneity in the etiology across schizophrenia and autism spectrum disorder, PVI circuits are altered in these psychiatric disorders. Identifying mechanism(s) underlying PVI deficits is essential to establish treatments targeting in particular cognition. On the basis of published and new data, we propose oxidative stress as a common pathological mechanism leading to PVI impairment in schizophrenia and some forms of autism. A series of animal models carrying genetic and/or environmental risks relevant to diverse etiological aspects of these disorders show PVI deficits to be all accompanied by oxidative stress in the anterior cingulate cortex. Specifically, oxidative stress is negatively correlated with the integrity of PVIs and the extracellular perineuronal net enwrapping these interneurons. Oxidative stress may result from dysregulation of systems typically affected in schizophrenia, including glutamatergic, dopaminergic, immune and antioxidant signaling. As convergent end point, redox dysregulation has successfully been targeted to protect PVIs with antioxidants/redox regulators across several animal models. This opens up new perspectives for the use of antioxidant treatments to be applied to at-risk individuals, in close temporal proximity to environmental impacts known to induce oxidative stress.
Adobe PDF - MCT-07-0149--Suppl_Data.pdf from Inhibition of the heat shock protein 90 molecular chaperone <i>in vitro</i> and <i>in vivo</i> by novel, synthetic, potent resorcinylic pyrazole/isoxazole amide analogues (2023)

Adobe PDF - MCT-07-0149--Suppl_Data.pdf from Inhibition of the heat shock protein 90 molecular chaperone &lt;i&gt;in vitro&lt;/i&gt; and &lt;i&gt;in vivo&lt;/i&gt; by novel, synthetic, potent resorcinylic pyrazole/isoxazole amide analogues
Observation of electroweak W+W− pair production in association with two jets in proton-proton collisions at s=13TeV (2023)

An observation is reported of the electroweak production of a W+W− pair in association with two jets, with both W bosons decaying leptonically. The data sample corresponds to an integrated luminosity of 138 fb−1 of proton-proton collisions at s=13TeV, collected by the CMS detector at the CERN LHC. Events are selected by requiring exactly two opposite-sign leptons (electrons or muons) and two jets with large pseudorapidity separation and high dijet invariant mass. Events are categorized based on the flavor of the final-state leptons. A signal is observed with a significance of 5.6 standard deviations (5.2 expected) with respect to the background-only hypothesis. The measured fiducial cross section is 10.2±2.0fb and this value is consistent with the standard model prediction of 9.1±0.6fb.
Impaired Antibody Affinity Maturation Process Characterizes a Subset of Patients with Common Variable Immunodeficiency (2000)

Abstract Common variable immunodeficiency (CVID) is an heterogeneous syndrome characterized by decreased levels of serum Ig and recurrent bacterial infection. Here, we were interested to study whether a qualitative defect of the affinity Ab maturation process could be combined to the low level of serum Ig in a cohort of 38 CVID patients. For this, we designed a novel and rapid screening test for the detection of hypomutated V gene expressed by memory B cells. This test delineated a subset of 9/38 (23%) CVID patients with an abnormal pattern of Ig V gene mutation. The mean frequency of V gene mutation of this subset was significantly lower (1.74%) compared with other CVID patients (5.46%) and normal donors (6.5%) (p &amp;lt; 0.0001). The mean age of this subgroup was significantly higher than other hypogammaglobulinemic patients with normal levels of V gene mutation (p &amp;lt; 0.02), whereas no difference in the duration of symptoms was noted between the two groups. This suggests that hypomutation characterizes patients who began CVID late in life. Recently, it was shown that non-Ig sequences, such as the intronic BCL-6 gene, could be the target of the somatic hypermutation process in normal memory B cells. Our finding of a normal mutation frequency of the BCL-6 gene in two hypomutated CVID point to a defect of the Ig targeting of hypermutation machinery in these cases.
Nuclear magnetic resonance of xenon occluded in Na-A zeolite (1988)

2 pages
Highly tunable polyurethanes: organocatalyzed polyaddition and subsequent post-polymerization modification of pentafluorophenyl ester sidechains (2014)

A facile method for the synthesis of high molecular weight functionalized polyurethanes from a novel pentafluorophenyl ester-containing diol precursor is described.
Retention of Core Catalytic Functions by a Conserved Minimal Ribonuclease E Peptide That Lacks the Domain Required for Tetramer Formation (2006)

Ribonuclease E (RNase E) is a multifunctional endoribonuclease that has been evolutionarily conserved in both Gram-positive and Gram-negative bacteria. X-ray crystallography and biochemical studies have concluded that the Escherichia coli RNase E protein functions as a homotetramer formed by Zn linkage of dimers within a region extending from amino acid residues 416 through 529 of the 116-kDa protein. Using fragments of RNase E proteins from E. coli and Haemophilus influenzae, we show here that RNase E derivatives that are as short as 395 amino acid residues and that lack the Zn-link region shown previously to be essential for tetramer formation (i.e. amino acid residues 400-415) are catalytically active enzymes that retain the 5' to 3' scanning ability and cleavage site specificity characteristic of full-length RNase E and that also confer colony forming ability on rne null mutant bacteria. Further truncation leads to loss of these properties. Our results, which identify a minimal catalytically active RNase E sequence, indicate that contrary to current models, a tetrameric quaternary structure is not required for RNase E to carry out its core enzymatic functions.
Mating and piercing micromechanical structures for surface bonding applications (2002)

The authors have developed two types of micromechanical structures, using silicon micromachining techniques, which act as mechanical adhesives. Arrays of structures are fabricated on standard silicon wafers, with an areal density of approximately 200000 per cm/sup 2/, resulting in very strong bonds. Individual components are 4-18 mu m wide, and 4-15 mu m high above the substrate. Mating structures, which interlock with themselves, and piercing structures, which interlock with biological tissues, have been fabricated and tested. The mechanical behavior of this micromechanical velcro is in approximate agreement with the calculated strength.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Activation of naïve CD8+ T cells by memory cells impairs antitumor immunity in adoptive cell transfer (2011)

Scott, Christopher Dean MD; Klebanoff, Christopher A. MD; Roychoudhuri, Rahul MD; Kerkar, Sid P. MD; Borman, Zachary A.; Rosenberg, Steven A. MD, PhD; Restifo, Nicholas P. MD Author Information
Measurement of the top quark pair production charge asymmetry in proton-proton collisions at $ \sqrt{s} $ = 7 TeV using the ATLAS detector (2014)

This paper presents a measurement of the top quark pair (t t) production charge asymmetry A C using 4.7 fb -1 of proton-proton collisions at a centre-of-mass energy s = 7 TeV collected by the ATLAS detector at the LHC. A t t-enriched sample of events with a single lepton (electron or muon), missing transverse momentum and at least four high transverse momentum jets, of which at least one is tagged as coming from a b-quark, is selected. A likelihood fit is used to reconstruct the t t event kinematics. A Bayesian unfolding procedure is employed to estimate A C at the parton-level. The measured value of the t t production charge asymmetry is A C = 0.006 0.010, where the uncertainty includes both the statistical and the systematic components. Differential A C measurements as a function of the invariant mass, the rapidity and the transverse momentum of the t tsystem are also presented. In addition, A C is measured for a subset of events with large t t velocity, where physics beyond the Standard Model could contribute. All measurements are consistent with the Standard Model predictions.
Reducing DRAM Refresh Overheads with Refresh-Access Parallelism (2018)

This article summarizes the idea of "refresh-access parallelism," which was published in HPCA 2014, and examines the work's significance and future potential. The overarching objective of our HPCA 2014 paper is to reduce the significant negative performance impact of DRAM refresh with intelligent memory controller mechanisms. To mitigate the negative performance impact of DRAM refresh, our HPCA 2014 paper proposes two complementary mechanisms, DARP (Dynamic Access Refresh Parallelization) and SARP (Subarray Access Refresh Parallelization). The goal is to address the drawbacks of state-of-the-art per-bank refresh mechanism by building more efficient techniques to parallelize refreshes and accesses within DRAM. First, instead of issuing per-bank refreshes in a round-robin order, as it is done today, DARP issues per-bank refreshes to idle banks in an out-of-order manner. Furthermore, DARP proactively schedules refreshes during intervals when a batch of writes are draining to DRAM. Second, SARP exploits the existence of mostly-independent subarrays within a bank. With minor modifications to DRAM organization, it allows a bank to serve memory accesses to an idle subarray while another subarray is being refreshed. Our extensive evaluations on a wide variety of workloads and systems show that our mechanisms improve system performance (and energy efficiency) compared to three state-of-the-art refresh policies, and their performance bene ts increase as DRAM density increases.
Ectopic TAL-1/SCL Expression in Phenotypically Normal or Leukemic Myeloid Precursors: Proliferative and Antiapoptotic Effects Coupled with a Differentiation Blockade (1997)

The TAL-1 gene specifies a basic helix-loop-helix domain (bHLH) transcription factor, which heterodimerizes with E2A gene family proteins. tal-1 protein is abnormally expressed in the majority of T-cell acute lymphoblastic leukemias (T-ALLs). tal-1 is expressed and plays a significant role in normal erythropoietic differentiation and maturation, while its expression in early myeloid differentiation is abruptly shut off at the level of late progenitors/early differentiated precursors (G. L. Condorelli, L. Vitelli, M. Valtieri, I. Marta, E. Montesoro, V. Lulli, R. Baer, and C. Peschle, Blood 86:164-175, 1995). We show that in late myeloid progenitors (the phenotypically normal murine 32D cell line) and early leukemic precursors (the human HL-60 promyelocytic leukemia cell line) ectopic tal-1 expression induces (i) a proliferative effect under suboptimal culture conditions (i.e., low growth factor and serum concentrations respectively), via an antiapoptotic effect in 32D cells or increased DNA synthesis in HL-60 cells, and (ii) a total or marked inhibitory effect on differentiation, respectively, on granulocyte colony-stimulating factor-induced granulopoiesis in 32D cells or retinoic acid- and vitamin D3-induced granulo- and monocytopoiesis in HL-60 cells. Furthermore, experiments with 32D temperature-sensitive p53 cells indicate that aberrant tal-1 expression at the permissive temperature does not exert a proliferative effect but causes p53-mediated apoptosis, i.e., the tal-1 proliferative effect depends on the integrity of the cell cycle checkpoints of the host cell, as observed for c-myc and other oncogenes. tal-1 mutant experiments indicate that ectopic tal-1 effects are mediated by both the DNA-binding and the heterodimerization domains, while the N-terminally truncated tal-1 variant (M3) expressed in T-ALL malignant cells mimics the effects of the wild-type protein. Altogether, our results (i) indicate proliferative and antidifferentiative effects of ectopic tal-1 expression, (ii) shed light on the underlying mechanisms (i.e., requirement for the integrity of the tal-1 bHLH domain and cell cycle checkpoints in the host cell, particularly p53), and (iii) provide new experimental models to further investigate these mechanisms.
Impact of Electric Arcs and Pulsed Electric Fields on the Functional Properties of Beta-Lactoglobulin (2022)

Beta-lactoglobulin (β-lg) is a major whey protein with various techno-functional properties that can be improved by several treatments. Therefore, the objective of this study was to explore the impact of green high-voltage electrical treatments (HVETs)-namely, pulsed electric fields and electric arcs-on the functional properties of β-lg. Both emulsifying and foaming stability and capacity, as well as the hygroscopicity of non-treated and pretreated β-lg, were explored. The results demonstrated that the emulsifying capacity and stability of pretreated samples increased by 43% and 22% when compared to native β-lg, respectively. Likewise, the pretreated β-lg displayed better foaming stability compared to native β-lg. In addition, the HVETs significantly decreased the hygroscopicity of β-lg (by 48% on average), making it a good ingredient with reduced hygroscopicity for the food industry.
The functional basis of minor histocompatibility loci. (1993)

This work addresses the functional basis of classical minor histocompatibility (H) loci. We focus on the H-3 locus, which is actually a complex genetic unit to which the phenotypic trait of tissue rejection, genes whose products stimulate specific subsets of T cells, and Ir genes have been mapped. To clarify how these genes relate to one another and to the trait of tissue rejection, strains of intra-H-3 recombinant mice were produced and analyzed. These mice allowed us to selectively elicit immune responses to Ag (referred to as type I Ag) that stimulate MHC class I-restricted CTL, or Ag (referred to as type II Ag) that stimulate MHC class II-restricted Th. The splitting of H-3 in this manner resulted in a dramatic diminution of the skin allograft response, and with rare exception, an elimination of the CTL response after spleen cell immunization. A selective response to type I Ag resulted in slow, incomplete skin allograft rejection that demonstrated both CD4+ cell-dependent and -independent components. A selective response to the type II Ag failed to result in allograft rejection. The type II Ag did, however, act as an Ir gene that determined whether responses to type I Ag could occur. Altogether, the results indicate that the trait of tissue rejection associated with H-3 is a consequence of the strongly synergistic effects of Th-CTL collaboration induced by products of type I and type II genes. Moreover, the results suggest a genetic explanation for some of the Ir gene effects associated with H-3.
Connections of areas 3b and 1 of the parietal somatosensory strip with the ventroposterior nucleus in the owl monkey (Aotus trivirgatus) (1979)

Abstract Anatomical tracers were injected into electrophysiologically defined sites in somatosensory cortical Area 3b (SI proper) and Area I (posterior cutaneous field) of owl monkeys after these cortical subdivisions had been extensively explored in microelectrode mapping experiments. These mapping experiments revealed that both Areas 3b and 1 contain complete and separate representations of the body surface (Merzenich et al., '78). Restricted injections of the retrograde tracer, horseradish peroxidase (HRP), into either Area 3b or Area 1 labeled neurons within a band of cells in the ventroposterior nucleus (VP). The location of the labeled band in VP varied with the location of the injection site in both representations, and the labeled region of VP was overlapping for injections in corresponding body parts in the two representations. Neurons projecting to the hand and foot cortical representations were in architectonically identified subnuclei. Because injections into either Area 3b or Area 1 labeled over half of the neurons in the appropriate regions of VP, it appears that some neurons in VP project to both cortical representations. Finally, injections of HRP combined with the anterograde tracer, 3 H‐proline, indicate that VP neurons are reciprocally interconnected with both Areas 3b and 1.
Active MnOx Electrocatalysts Prepared by Atomic Layer Deposition for Oxygen Evolution and Oxygen Reduction Reactions (2012)

Abstract The ability to deposit conformal catalytic thin films enables opportunities to achieve complex nanostructured designs for catalysis. Atomic layer deposition (ALD) is capable of creating conformal thin films over complex substrates. Here, ALD‐MnO x on glassy carbon is investigated as a catalyst for the oxygen evolution reaction (OER) and the oxygen reduction reaction (ORR), two reactions that are of growing interest due to their many applications in alternative energy technologies. The films are characterized by X‐ray photoelectron spectroscopy, X‐ray diffraction, scanning electron microscopy, ellipsometry, and cyclic voltammetry. The as‐deposited films consist of Mn(II)O, which is shown to be a poor catalyst for the ORR, but highly active for the OER. By controllably annealing the samples, Mn 2 O 3 catalysts with good activity for both the ORR and OER are synthesized. Hypotheses are presented to explain the large difference in the activity between the MnO and Mn 2 O 3 catalysts for the ORR, but similar activity for the OER, including the effects of surface oxidation under experimental conditions. These catalysts synthesized though ALD compare favorably to the best MnO x catalysts in the literature, demonstrating a viable way to produce highly active, conformal thin films from earth‐abundant materials for the ORR and the OER.
Supplementary Table 2 from SMAC Mimetic (JP1201) Sensitizes Non–Small Cell Lung Cancers to Multiple Chemotherapy Agents in an IAP-Dependent but TNF-α–Independent Manner (2023)

&lt;p&gt;PDF file - 102K, Cell growth assays were performed in 96 well format for 5 days. Cells were plated on day zero and exposed to drug for four days before cell survival was determined using MTS (Promega; final concentration, 333 mg/mL) read at 490 nm 1‐3 hours after addition. Drug sensitivity curves and IC50 were determined using in house software. Data represents average of �3 determinants.&lt;/p&gt;
S789 Effect of Mirikizumab on Inflammatory Biomarkers in a Phase 2 Study of Patients With Crohn’s Disease (2021)

Introduction: Mirikizumab (miri) has shown efficacy in ulcerative colitis, and Crohn’s disease(CD). High-sensitivity C-reactive protein(hsCRP)correlates with disease activity in a majority of patients (pts), fecal calprotectin (FCP) correlates with mucosal inflammation and can be used as a reliable biomarker of mucosal healing. Methods: At baseline (BL), pts (N = 191) were randomized 2:1:1:2 across 4 treatment arms(PBO,200, 600, 1000 mg miri, administered intravenously (IV) at Weeks (W) 0, 4, 8). Pts receiving miri and achieving ≥1 point improvement at W12 in SES-CD were re-randomized 1:1 into double-blind maintenance to continue same IV treatment (all IV combined, IV-C; N = 41) or 300 mg miri SC (SC; N = 46) until W52. W12 non-improvers (NI) and those receiving PBO during induction received 1000 mg miri IV through W52. Fecal samples and serum were collected for assessment of FCP and hsCRP, respectively, at BL, W12, and W52. Comparisons to PBO for continuous data at W12 used normal approximation for Wilcoxon two-sample test. For categorical data, logistic regression analysis with treatment, geographic region, and prior biologic CD therapy as factors was used for comparisons to PBO at W12. Results: At W12, percent change from BL (%ΔBL) in hsCRP was significantly greater in miri groups compared to PBO ([median Q1, Q3] PBO: 43.8 [-8.3, 145.5]; 200 mg miri: -29.9 [-64.8, 25.9] P < 0.001; 600 mg miri: -39.8 [-70.6, 0.2] P < 0.001; 1000 mg miri: -48.6 [-76.1, 35.1] P < 0.001). The %ΔBL in FCP was significantly greater in 600 and 1000 mg miri groups vs PBO (PBO: 0.0 [-60.9, 54.1]; 200 mg miri: -60.7 [-84.8, 68.0]; 600 mg miri: -62.1 [-84.4, -13.2] P < 0.05; 1000 mg miri: -76.2 [-90.7, -54.9] P < 0.001). The percent of pts with normalized CRP (≤ 3 mg/L) or FCP (≤ 250, 100, 50 mg/kg) levels was significantly higher in miri groups vs PBO, with highest proportion in 1000 mg miri group. At W52, all groups that received miri during induction (IV-C, 300 mg SC, NI/1000 mg) had further decrease in CRP and FCP from BL, while the induction PBO pts who switched to 1000 mg miri had %ΔBL similar to induction 1000 mg miri group at W12. The percent of pts with normalized CRP or FCP at W52 exhibited a similar pattern. Conclusion: Significant and dose dependent decrease of hsCRP and FCP with miri vs. PBO is consistent with results of clinical and endoscopic parameters and demonstrates the anti-inflammatory activity of miri. Notably, substantial proportions of pts had levels in a range observed in healthy subjects.