gebhart/patrepeval huggingface dataset:
Investigations into methods of removing from marine sediments that toxicity attributable to organic contaminants (1995)

Sediments from contaminated estuaries such as New York/New Jersey Harbor are toxic due to the presence of a diversity of contaminants, e.g., heavy metals, ammonia, and organics such as PCBs, PAHs, PCDDs and PCDFs. To facilitate Toxicity Identification Evaluation (TIE) studies of whole sediments, the authors have developed a strategy for selectively reducing or removing organic contaminant residues with minimal disruption of the dynamics of other classes of contaminants that contribute to whole sediment toxicity. The strategy consists of an optional prewash of the sediment slurry with a nonpolar volatile solvent to remove globular and crystalline contaminant phases, turbation of sediment slurry (elevated temperature may be required) in the presence of polyethylene strips (PE) or charcoal-impregnated PE strips and triolein-containing semipermeable membrane devices (SPMDs), and finally addition of small amounts of fine-grained activated carbon (shown to be nontoxic) to the test sediment. Replicate (n = 2) samples of a marine sediment spiked and aged with 500 {micro}g/g dieldrin were successfully detoxified using these procedures, as 48 h bioassays (Mysidopsis bahia and Ampelisca abdita) showed no toxicity, while untreated sediment and SPMD dialysates were toxic. Gas chromatographic analysis of the treated sediment samples showed that 97 and > 99 percent ofmore » the dieldrin had been removed. Detoxification of other sediments with naturally incurred high-K{sub oc} organic pollutants may be more problematic.« less
The adsorption ofPseudomonas aeruginosabacteriophage ÏKMV is dependent on expression regulation of type IV pili genes (2009)

Pseudomonas aeruginosa bacteriophage phiKMV requires type IV pili for infection, as observed from the phenotypic characterization and phage adsorption assays on a phage infection-resistant host strain mutant. A cosmid clone library of the host (P. aeruginosa PAO1) genomic DNA was generated and used to select for a clone that was able to restore phiKMV infection in the resistant mutant. This complementing cosmid also re-established type IV pili-dependent twitching motility. The correlation between bacteriophage phiKMV infectivity and type IV pili, along with its associated twitching motility, was confirmed by the resistance of a P. aeruginosa PAO1DeltapilA mutant to the phage. Subcloning of the complementing cosmid and further phage infection analysis and motility assays suggests that a common regulatory mechanism and/or interaction between the ponA and pilMNOPQ gene products are essential for bacteriophage phiKMV infectivity.
Polydopamine–Mesoporous Silica Core–Shell Nanoparticles for Combined Photothermal Immunotherapy (2020)

Cancer immunotherapy involves a cascade of events that ultimately leads to cytotoxic immune cells effectively identifying and destroying cancer cells. Responsive nanomaterials, which enable spatiotemporal orchestration of various immunological events for mounting a highly potent and long-lasting antitumor immune response, are an attractive platform to overcome challenges associated with existing cancer immunotherapies. Here, we report a multifunctional near-infrared (NIR)-responsive core-shell nanoparticle, which enables (i) photothermal ablation of cancer cells for generating tumor-associated antigen (TAA) and (ii) triggered release of an immunomodulatory drug (gardiquimod) for starting a series of immunological events. The core of these nanostructures is composed of a polydopamine nanoparticle, which serves as a photothermal agent, and the shell is made of mesoporous silica, which serves as a drug carrier. We employed a phase-change material as a gatekeeper to achieve concurrent release of both TAA and adjuvant, thus efficiently activating the antigen-presenting cells. Photothermal immunotherapy enabled by these nanostructures resulted in regression of primary tumor and significantly improved inhibition of secondary tumor in a mouse melanoma model. These biocompatible, biodegradable, and NIR-responsive core-shell nanostructures simultaneously deliver payload and cause photothermal ablation of the cancer cells. Our results demonstrate potential of responsive nanomaterials in generating highly synergistic photothermal immunotherapeutic response.
Development of Nomograms to Predict the Recovery of Erectile Function Following Radical Prostatectomy (2019)

It is hoped that these nomograms will allow for a more accurate discussion between patients and clinicians regarding erectile function recovery after RP. Mulhall JP, Kattan MW, Bennett NE, et al. Development of Nomograms to Predict the Recovery of Erectile Function Following Radical Prostatectomy J Sex Med 2019;16:1796-1802.
Endovascular Repair of Blunt Extremity Arterial Injury: Case Report (2008)

Endovascular therapy can offer faster, easier access to the extremity vascular injury facilitating revascularization and avoiding long incisions and dissections.
Characterizing Heterogeneity in Neuroimaging, Cognition, Clinical Symptoms, and Genetics Among Patients With Late-Life Depression (2022)

This study characterized heterogeneity in LLD into 2 dimensions with distinct neuroanatomical, cognitive, clinical, and genetic profiles. This dimensional approach provides a potential mechanism for investigating the heterogeneity of LLD and the relevance of the latent dimensions to possible disease mechanisms, clinical outcomes, and responses to interventions.
Data-Driven Multi-Objective Optimization Tactics for Catalytic Asymmetric Reactions Using Bisphosphine Ligands (2022)

Optimization of the catalyst structure to simultaneously improve multiple reaction objectives (e.g., yield, enantioselectivity, and regioselectivity) remains a formidable challenge. Herein, we describe a machine learning workflow for the multi-objective optimization of catalytic reactions that employ chiral bisphosphine ligands. This was demonstrated through the optimization of two sequential reactions required in the asymmetric synthesis of an active pharmaceutical ingredient. To accomplish this, a density functional theory-derived database of >550 bisphosphine ligands was constructed, and a designer chemical space mapping technique was established. The protocol used classification methods to identify active catalysts, followed by linear regression to model reaction selectivity. This led to the prediction and validation of significantly improved ligands for all reaction outputs, suggesting a general strategy that can be readily implemented for reaction optimizations where performance is controlled by bisphosphine ligands.
Parametric resonance of bi-directional axial loads shallow arch microresonators (2022)

Abstract In this work, we investigate analytically and experimentally parametric resonances of an in-plane clamped-guided shallow arch microresonator. The arch is connected to a T-shaped moveable mass, which is sandwiched between two electrodes to electrostatically activate the device and to offer bi-directional axial loads option. The device is tested under primary and secondary parametric resonances. In addition, an analytical model is presented taking into account the initial rise of the microbeam and the sliding motion at the guided side. The static and free vibration problems are solved using the Differential Quadrature Method, and the dynamic response is simulated using an assumed mode Galerkin approximation. The theoretical results of the static and dynamic behavior of the device are compared to experimental data showing good agreement. Moreover, we demonstrate the use of parametric excitation to significantly amplify the axial motion. It is found that the second parametric resonance, corresponding to the fundamental mode of the arched microbeam, has a higher amplitude than the principal parametric case, due to the initial curvature of the beam. Thus, the proposed device can be a promising candidate for variety of sensing applications.
The role of the coupling term in transient elastography (2003)

The transient radiation of low-frequency elastic waves through isotropic and homogeneous soft media is investigated using the Green's function approach. A careful analysis of the coupling term is performed and yields the introduction of a very near field region in which its amplitude behaves as 1/r. To address the calculation of impulse responses, a simplified Green's function is proposed for semi-infinite media and compared to exact solutions. Impulse response calculations are successfully compared with experimental measurements obtained for circular radiators of different diameters using transient elastography. Results presented in this paper provide a better understanding of the role of the coupling term in elastography and should be used to compensate diffraction and coupling effects observed in transient elastography.
Performance of Beamforming for a Handheld Device in Measured 21.5 GHz Indoor Channels (2022)

This article presents an evaluation of the performance of two different approaches for beamforming (BF) in a fifth generation (5G) handset, based on measured channels from a dual-polarized transmitter (Tx) to a mockup handset with a seven-element receiver (Rx) array. The measurements at 21.5 GHz include both small-scale and large-scale channel changes and were conducted for different users holding the mockup at different locations in an indoor corridor environment. The unique measurements enable novel results based on the statistics of the power achieved with BF, using channel state information (CSI) measured at a 90 Hz rate, and both when using beam scanning (BS) and the equal gain combining (EGC) reference case. For the case of ideal CSI knowledge, BF gains of up to about 18 dB were found. However, when the density of the angle scanning grid is reduced and the CSI is delayed to realistic values, the average performance decreases by 8 dB. More results are given in the article.
AAMPL (2008)

A variety of mobile phone applications are on the rise, many of which utilize physical location to express the "context" of information. This paper argues that physical location alone, unless remarkably precise, may not be sufficient to express this context. Even slight localization errors may cause a mobile phone to be placed in a grocery store, as opposed to its actual location in an adjacent coffee shop. Applications such as location specific advertisements, can get affected. This paper proposes accelerometer augmented mobile phone localization (AAMPL), a system that uses accelerometer signatures to place mobile phones in the right context. Early evaluation on Nokia N95 phones shows that AAMPL can correct locations derived from Google Maps. We believe that AAMPL can be extended to additional sensors (like light and sound) to further aid GPS-free localization.
Estimation of High Framerate Digital Subtraction Angiography Sequences at Low Radiation Dose (2021)

International audience
Molecular mechanism of the wake-promoting agent TAK-925 (2022)

The OX<sub>2</sub> orexin receptor (OX<sub>2</sub>R) is a highly expressed G protein-coupled receptor (GPCR) in the brain that regulates wakefulness and circadian rhythms in humans. Antagonism of OX<sub>2</sub>R is a proven therapeutic strategy for insomnia drugs, and agonism of OX<sub>2</sub>R is a potentially powerful approach for narcolepsy type 1, which is characterized by the death of orexinergic neurons. Until recently, agonism of OX<sub>2</sub>R had been considered 'undruggable.' We harness cryo-electron microscopy of OX<sub>2</sub>R-G protein complexes to determine how the first clinically tested OX<sub>2</sub>R agonist TAK-925 can activate OX<sub>2</sub>R in a highly selective manner. Two structures of TAK-925-bound OX<sub>2</sub>R with either a G<sub>q</sub> mimetic or G<sub>i</sub> reveal that TAK-925 binds at the same site occupied by antagonists, yet interacts with the transmembrane helices to trigger activating microswitches. Our structural and mutagenesis data show that TAK-925's selectivity is mediated by subtle differences between OX<sub>1</sub> and OX<sub>2</sub> receptor subtypes at the orthosteric pocket. Finally, differences in the polarity of interactions at the G protein binding interfaces help to rationalize OX<sub>2</sub>R's coupling selectivity for G<sub>q</sub> signaling. The mechanisms of TAK-925's binding, activation, and selectivity presented herein will aid in understanding the efficacy of small molecule OX<sub>2</sub>R agonists for narcolepsy and other circadian disorders.
Supplementary Table 5 from Identification of Campath-1 (CD52) as Novel Drug Target in Neoplastic Stem Cells in 5q-Patients with MDS and AML (2023)

&lt;p&gt;PDF file - 48K, Supplementary Table S5: The oligonucleotide primer sequences for quantitative PCR (qPCR).&lt;/p&gt;
Differential Regulation of MDR1 Transcription by the p53 Family Members (2005)

Although the p53 family members share a similar structure and function, it has become clear that they differ with respect to their role in development and tumor progression. Because of the high degree of homology in their DNA binding domains (DBDs), it is not surprising that both p63 and p73 activate the majority of p53 target genes. However, recent studies have revealed some differences in a subset of the target genes affected, and the mechanism underlying this diversity has only recently come under investigation. Our laboratory has demonstrated previously that p53 represses transcription of the P-glycoprotein-encoding MDR1 gene via direct DNA binding through a novel p53 DNA-binding site (the HT site). By transient transfection analyses, we now show that p63 and p73 activate rather than repress MDR1 transcription, and they do so through an upstream promoter element (the alternative p63/p73 element (APE)) independent of the HT site. This activation is dependent on an intact DNA binding domain, because mutations within the p63DBD or p73DBD are sufficient to prevent APE-mediated activation. However, neither p63 nor p73 directly interact with the APE, suggesting an indirect mechanism of activation through this site. Most interestingly, when the p53DBD is replaced by the p63DBD, p53 is converted from a repressor working through the HT site to an activator working through the APE. Taken together, these data indicate that, despite considerable homology, the DBD of the p53 family members have unique properties and can differentially regulate gene targeting and transcriptional output by both DNA binding-dependent and -independent mechanisms.
Synthesis of a Bis-amino Acid that Creates a Sharp Turn (2004)

[reaction: see text] The synthesis of a new bis-amino acid 1 is presented. This monomer is designed to create a tightly curved structure when assembled into oligomers. The monomer is demonstrated to couple to the previously developed monomer 2 through pairs of amide bonds to create a strongly bent spiro-ladder oligomer. The structure of oligomer 3 was determined in aqueous solution using two-dimensional NMR.
Parameterized schematics (1988)

This paper presents a design capture system that allows parameterized schematics and code to be intermixed freely to produce annotated net lists. A key feature of the system is its extensibility. It provides a small set of powerful abstractions for design description that can easily be extended by users. The system also allows convenient graphical specification of layout generators, and has been used to produce several large VLSI chips.
Natural killer cell acceptance of H-2 mismatch bone marrow grafts in transgenic mice expressing HLA-Cw3 specific killer cell inhibitory receptor (CD158b) (1997)

Natural killer (NK) cells express killer cell inhibitory receptors (KIRs) for major histocompatibility complex class I molecules. Engagement of these surface receptors inhibits NK cell cytotoxic programs. KIR can also be expressed on T cell subsets, and their engagement similarly results in inhibition of effector functions initiated by the CD3/T cell receptor complex. KIR genes belong to two distinct families: the immunoglobulin superfamily (IgSF KIRs) and dimeric C2 lectins (lectin-like KIRs). Whereas both IgSF (p58: CD158, p70, and p140) and lectin-like KIRs (CD94/NKG2A heterodimers) have been found in human, only lectin-like KIRs (all members of the Ly-49 family) have been described in the mouse. We have generated transgenic mice expressing an IgSF KIR, CD158b (p58.2), which recognizes HLA-Cw3. Our data show that CD158b is necessary and sufficient to confer specificity to NK cells, as well as to modulate T cell activation programs in vitro. In addition, we did not detect any adaptation of CD158b cell surface expression to that of HLA class I ligands in the CD158b x HLA-Cw3 double transgenic mice, in contrast to observations with Ly-49 in the mouse. Therefore, distinct strategies of selection/calibration appear to be used by IgSF and lectin-like KIRs. Finally, the transgenic expression of CD158b KIR prevents the in vivo rejection of H-2 mismatch bone marrow grafts, which express the cognate major histocompatibility class I HLA-Cw3 allele, demonstrating for the first time the in vivo implication of human IgSF KIRs in the negative regulation of NK cell function.
Molecular Orbital Calculations and Raman Measurements for 1-Ethyl-3-methylimidazolium Chloroaluminates (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTMolecular Orbital Calculations and Raman Measurements for 1-Ethyl-3-methylimidazolium ChloroaluminatesS. Takahashi, L. A. Curtiss, D. Gosztola, N. Koura, and Marie-Louise SaboungiCite this: Inorg. Chem. 1995, 34, 11, 2990–2993Publication Date (Print):May 1, 1995Publication History Published online1 May 2002Published inissue 1 May 1995https://pubs.acs.org/doi/10.1021/ic00115a029https://doi.org/10.1021/ic00115a029research-articleACS PublicationsRequest reuse permissionsArticle Views661Altmetric-Citations89LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Finite Element Analysis of Adhesive-Bonded Single-Lap Joints (2002)

Finite element analyses were conducted using commercial software ABAQUS to analyze the mechanical behavior of single-lap adhesive-bonded joints. Adhesive was characterized for the stress-strain relation by comparing the apparent shear-strain relations obtained from finite element analysis and experiments following ASTM D 5656 “Standard Test Method for Thick-Adherend Metal Lap-Shear Joints for Determination of the Stress-Strain Behavior of Adhesives in Shear by Tension Loading.” With the established stress-strain relation, two failure criteria using equivalent plastic strain and J-integral were used to predict the failure load for joint specimens following ASTM D 5656 and ASTM D 3165 (Strength Properties of Adhesives in Shear by Tension Loading of Single-Lap-Joint Laminated Assemblies), respectively. Bondline thicknesses of 0.013”, 0.04”, 0.08”, and 0.12” were used in the investigation. Good correlation was found between the finite element results and the experimental results.
Neuronal Tau Pathology Worsens Late Phase White Matter Degeneration After Traumatic Brain Injury in Transgenic Mice (2023)

ABSTRACT Traumatic brain injury (TBI) causes diffuse axonal injury which can produce chronic white matter pathology and subsequent post-traumatic neurodegeneration with poor patient outcomes. Tau modulates axon cytoskeletal functions and undergoes phosphorylation and mis-localization in neurodegenerative disorders. The effects of tau pathology on neurodegeneration after TBI are unclear. We used mice with neuronal expression of human mutant tau to examine effects of pathological tau on white matter pathology after TBI. Adult male and female hTau.P301S (Tg2541) transgenic and wild type (Wt) mice received either moderate single TBI (s-TBI) or repetitive mild TBI (r-mTBI; once daily x 5), or matched sham procedures. Acutely, s-TBI produced more extensive axon damage in the corpus callosum (CC) as compared to r-mTBI. After s-TBI, significant CC thinning was present at 6 weeks and 4 months post-injury in Wt and transgenic mice, with homozygous tau expression producing additional pathology of late demyelination. In contrast, r-mTBI did not produce significant CC thinning except at the chronic time point of 4 months in homozygous mice, which exhibited significant CC atrophy (−29.7%) with increased CC microgliosis, but not astrogliosis. Serum biomarker quantification demonstrated neurofilament light detection of early axonal damage one day post-injury in Wt and homozygous mice. At 4 months, high tau and neurofilament in homozygous mice implicated tau in chronic axon pathology. Conclusions: Neuronal tau pathology differentially exacerbated CC pathology based on injury severity and chronicity. Ongoing CC atrophy from s-TBI became accompanied by late demyelination. Pathological tau significantly worsened CC atrophy during the chronic phase after r-mTBI.
Amylin inhibits ovariectomy-induced bone loss in rats (2000)

Amylin (AMY), a peptide co-secreted with insulin by pancreatic beta-cells, inhibits bone resorption and stimulates osteoblastic activity. The ovariectomized (OVX) rat is an established animal model for human osteoporosis. Thus, the present experiment was performed to study the effects of AMY on estrogen deficiency-induced bone loss in rats. Thirty-one 6-month-old Wistar rats were randomized by body weight (BW) into two groups. The first underwent surgical OVX (n=21). The second was sham-operated (SH; n=10). Sixty days after surgery, 11 OVX rats were s.c. injected with rat AMY (3 microg/100 g BW/day, for 30 days; OVX+AMY), and 10 with solvent alone in the same way (0.15 ml/100 g BW; OVX). Each rat, housed in an individual cage, was fed daily the mean quantity of diet consumed the day before by SH rats. This diet contained 0.24% calcium and 0. 16% phosphorus. The 31 animals were killed on day 90. No difference in daily weight gain and BW was observed between groups. Neither AMY treatment nor OVX had any significant effect upon femoral morphology, femoral failure load, diaphyseal femoral density (representative of cortical bone) and total femoral calcium content. Nevertheless, both distal metaphyseal (representative of cancellous bone) and total femoral bone densities were higher in SH and OVX+AMY than in OVX rats. The highest plasma osteocalcin concentration was measured in OVX+AMY rats. Simultaneously, urinary deoxypyridinoline excretion was lower in OVX+AMY than in OVX rats. These results indicate that in OVX rats, AMY treatment inhibited trabecular bone loss both by inhibiting resorption and by stimulating osteoblastic activity.