gebhart/patrepeval huggingface dataset:
Identification of the binding site in intercellular adhesion molecule 1 for its receptor, leukocyte function-associated antigen 1. (1997)

Intercellular adhesion molecule 1 (ICAM-1, CD54) is a member of the Ig superfamily and is a counterreceptor for the beta 2 integrins: lymphocyte function-associated antigen 1 (LFA-1, CD11a/CD18), complement receptor 1 (MAC-1, CD11b/CD18), and p150,95 (CD11c/CD18). Binding of ICAM-1 to these receptors mediates leukocyte-adhesive functions in immune and inflammatory responses. In this report, we describe a cell-free assay using purified recombinant extracellular domains of LFA-1 and a dimeric immunoadhesin of ICAM-1. The binding of recombinant secreted LFA-1 to ICAM-1 is divalent cation dependent (Mg2+ and Mn2+ promote binding) and sensitive to inhibition by antibodies that block LFA-1-mediated cell adhesion, indicating that its conformation mimics that of LFA-1 on activated lymphocytes. We describe six novel anti-ICAM-1 monoclonal antibodies, two of which are function blocking. Thirty-five point mutants of the ICAM-1 immunoadhesin were generated and residues important for binding of monoclonal antibodies and purified LFA-1 were identified. Nineteen of these mutants bind recombinant LFA-1 equivalently to wild type. Sixteen mutants show a 66-2500-fold decrease in LFA-1 binding yet, with few exceptions, retain binding to the monoclonal antibodies. These mutants, along with modeling studies, define the LFA-1 binding site on ICAM-1 as residues E34, K39, M64, Y66, N68, and Q73, that are predicted to lie on the CDFG beta-sheet of the Ig fold. The mutant G32A also abrogates binding to LFA-1 while retaining binding to all of the antibodies, possibly indicating a direct interaction of this residue with LFA-1. These data have allowed the generation of a highly refined model of the LFA-1 binding site of ICAM-1.
Function of the olfactory receptor OR2AT4 in alveolar macrophages (2020)

New therapeutic options are required to stop the disease progression of COPD and severe asthma, particularly in phenotypes with neutrophilic inflammation. Alveolar macrophages (AMs) might be a suitable target cell as they play a central role in these obstructive lung disease phenotypes. The understanding of olfactory receptors (ORs), G-protein-coupled receptors that are expressed on many cell types beyond the olfactory epithelium is still in its infancy. Recent research has suggested them as molecular therapeutic targets in several diseases including NSCLC. Moreover, Ca-dependent signaling and phagocytosis in AM are dysregulated in obstructive lung diseases.
Gas phase dehydration of glycerol to acrolein on an amino siloxane-functionalized MCM-41 supported Wells–Dawson type H6P2W18O62 catalyst (2018)

A novel amino siloxane-functionalized MCM-41 supported Wells–Dawson type H<sub>6</sub>P<sub>2</sub>W<sub>18</sub>O<sub>62</sub> (D-HPW) catalyst was synthesized by a two-step method and investigated in the gas phase dehydration of glycerol to acrolein, and the yield of acrolein was obviously improved.
Proximal Newton Methods for X-Ray Imaging with Non-Smooth Regularization (2019)

Non-smooth regularization is widely used in image reconstruction to eliminate the noise while preserving subtle image structures. In this work, we investigate the use of proximal Newton (PN) method to solve an optimization problem with a smooth data-fidelity term and total variation (TV) regularization arising from image reconstruction applications. Specifically, we consider a nonlinear Poisson-modeled single-energy X-ray computed tomography reconstruction problem with the data-fidelity term given by the I-divergence. The PN algorithm is compared to state-of-the-art first-order proximal algorithms, such as the well-established fast iterative shrinkage and thresholding algorithm (FISTA), both in terms of the number of iterations and time to solutions. We discuss the key factors that influence the performance of PN, including the strength of regularization, the stopping criterion for both sub-problem and main-problem, and the use of exact or approximated Hessian operators.
Surfactant without Intubation in Preterm Infants with Respiratory Distress: First Multi-center Data (2010)

A new method of surfactant application was associated with a lower prevalence of mechanical ventilation and better pulmonary outcome. A prospective controlled trial is required to determine whether this approach is superior to standard care.
Increasing the dyanamic range of coherent optical filters by means of modulating gratings* (1973)

We report on a new method for increasing the linear dynamic range of coherent-optical spatial filters, with special reference to holographic image-deblurring filters. In the filter-generating step, a transmission grating is placed in contact with the transparency representing the spread function of the blur. The spectrum of the spread function then appears in a series of equally spaced islands of different intensities, each occupying a different region of the nonlinear characteristic of the recording medium. Each spatial frequency can then be properly exposed somewhere on the filter, even with a film of limited dynamic range. In the image -processing step, the grating is superposed on the blurred image, the spectrum of which then falls on all the islands of the filter. In this way, the filtering operation is done in parallel channels, each with a different nonlinear characteristic. The channels are combined in the output plane by superposing a grating on the filtered aerial image and viewing this plane through an optical system that does not resolve the grating. Theory, computer simulations, and experimental results are presented. The results show in particular that a good transfer function can be achieved with a hologram-only filter.
Postoperative Segmental Motion of the Unfused Spine Distal to the Fusion in 100 Patients With Adolescent Idiopathic Scoliosis (2011)

In a group of postoperative patients with adolescent idiopathic scoliosis, evaluation of the distal unfused intervertebral motion showed that preservation of vertebral motion segments allowed greater distribution of functional motion across more levels. With each distal fusion level, motion was significantly increased at the L2-L3, L3-L4, and L4-L5 segmental levels in lateral bending. The relationship between the increased motion and subsequent disc degeneration with a more distal fusion is unknown, but suspected.
Combined NMR, SAXS, and DLS Study of Concentrated Clear Solutions Used in Silicalite-1 Zeolite Synthesis (2007)

Concentrated clear solutions, as used for the preparation of Silicalite-1 zeolite, were synthesized from tetrapropylammonium hydroxide, tetraethylorthosilicate, and water. The solutions were analyzed using three techniques: quantitative 29Si NMR, synchrotron small-angle X-ray scattering (SAXS), and dynamic light scattering (DLS). 29Si NMR showed the coexistence of silicate oligomers and particles. For the first time, both fractions were analyzed simultaneously, providing a global, quantitative description of the clear solution microstructure. The SAXS patterns, typical of interacting particles, could be used together with the 29Si NMR deduced particle volume fraction to estimate a particle size. A careful analysis of DLS data of the dynamics of the suspensions revealed the occurrence of two diffusive processes. The faster process is a collective particle diffusion. The slower process corresponds to the particle self-diffusion and is present because of the presence of polydispersity in size, shape, and/or surface charge. The self-diffusion coefficient provides a means to estimate the equivalent hydrodynamic radius. The observations hence reveal a complex, polydisperse mixture of particles present at the onset of the Silicalite-1 zeolite formation. Implications on the proposed zeolite formation mechanisms are briefly discussed.
Supplementary Figure 1 from Characterization of the Methylation Patterns in Human Papillomavirus Type 16 Viral DNA in Head and Neck Cancers (2023)

Supplementary Figure 1 from Characterization of the Methylation Patterns in Human Papillomavirus Type 16 Viral DNA in Head and Neck Cancers
Structural relationships in the adenylate kinase family (1986)

The sequences of five distantly related adenylate kinases have been aligned. The local conservation of amino acids is discussed in the light of the known three-dimensional structure of one of the enzymes, the cytosolic isoenzyme 1 (AK1) from porcine muscle. The similarity profile outlines clearly the active site in the cleft of the spatial structure of AK1. The alignment reveals further that the enzyme family can be subdivided into small and large variants according to the presence or absence of a particular segment of about 30 residues in the middle of the chain. The extra segments of the large variants are strongly conserved.
Classification of Commercialized Carbon Nanotubes into Three General Categories as a Guide for Applications (2019)

We propose a general guideline for the application of commercialized carbon nanotubes (CNTs) by making correlations between the structures and properties for various single-walled, double-walled, and multiwalled CNTs. On the basis of these correlations, three general categories emerged: (1) low crystallinity and low specific surface area (SSA; large-diameter multiwalled CNTs); (2) low crystallinity and high SSA (large-diameter single- and double-walled CNTs); (3) high crystallinity and moderate SSA (small-diameter single-walled CNTs). This categorization would accelerate the industrialization of CNTs by easily identifying the suitable CNTs for a given application.
PIK3CA Mutation Is Associated With Poor Prognosis Among Patients With Curatively Resected Colon Cancer (2009)

Among patients who undergo a curative resection of colon cancer, PIK3CA mutation is associated with shorter cancer-specific survival. The adverse effect of PIK3CA mutation may be potentially limited to patients with KRAS wild-type tumors.
Re: Dietary Flavonoid Fisetin Binds to β-Tubulin and Disrupts Microtubule Dynamics in Prostate Cancer Cells (2016)

No AccessJournal of UrologyInvestigative Urology1 Aug 2016Re: Dietary Flavonoid Fisetin Binds to β-Tubulin and Disrupts Microtubule Dynamics in Prostate Cancer Cells Anthony AtalaMD Anthony AtalaAnthony Atala More articles by this author View All Author Informationhttps://doi.org/10.1016/j.juro.2016.05.011AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Re: Dietary Flavonoid Fisetin Binds to β-Tubulin and Disrupts Microtubule Dynamics in Prostate Cancer Cells." The Journal of Urology, 196(2), p. 618 © 2016 by American Urological Association Education and Research, Inc.FiguresReferencesRelatedDetails Volume 196Issue 2August 2016Page: 618 Advertisement Copyright & Permissions© 2016 by American Urological Association Education and Research, Inc.MetricsAuthor Information Anthony Atala More articles by this author Expand All Advertisement PDF downloadLoading ...
[Urinary incontinence in the female over 60 years of age--urodynamic findings]. (1989)

A group of 20 urinary continent postmenopausal women and two stress incontinent groups in the age of 60-69 and 70-79 years have been examined concerning standardized conditions without and with stress. The measurements using the pneumatic-hydraulic pump perfusion were recorded under standardized conditions. The whole pressure profile without stress decreased with increasing age and with stress incontinence. The maximum urethra closure pressure has been displaced in the distal part of the urethra. The stress profile demonstrated a shortening of the continence zone, a clear decrease of the urethra closure pressure and a bad pressure transmission in the whole urethra, especially in its distal part. These fluctuations make us expect, that there are only a few promising possibilities of conservative treatment in stress incontinent postmenopausal women over 70 years.
Photopatternable Low Loss Polymer Dielectric Materials for IR Metamaterial Applications. (2011)

Abstract not provided.
Radiographic Measurements of Spinal Alignment: Which Are Clinically Relevant? (2018)

Dr. Derman is Fellow, and Dr. Phillips is Professor, Department of Orthopaedic Surgery, Rush University Medical Center, 1611 W. Harrison St, Ste 300, Chicago, IL 60612; E-mail: [email protected]. The authors, faculty, and staff in a position to control the content of this CME activity, and their spouses/life partners (if any), have disclosed that they have no financial relationships with, or financial interests in, any commercial organizations related to this CME activity.Lippincott Continuing Medical Education Institute is accredited by the Accreditation Council for Continuing Medical Education to provide continuing medical education for physicians. Lippincott Continuing Medical Education Institute designates this enduring material for a maximum of 1.5 AMA PRA Category 1 Credits™. Physicians should claim only the credit commensurate with the extent of their participation in the activity. To earn CME credit, you must read the CME article and complete the quiz and evaluation assessment survey on the enclosed form, answering at least 70% of the quiz questions correctly. This activity expires on March 30, 2019.
Study design of a randomised, placebo-controlled trial of nintedanib in children and adolescents with fibrosing interstitial lung disease (2021)

Childhood interstitial lung disease (chILD) comprises >200 rare respiratory disorders, with no currently approved therapies and variable prognosis. Nintedanib reduces the rate of forced vital capacity (FVC) decline in adults with progressive fibrosing interstitial lung diseases (ILDs). We present the design of a multicentre, prospective, double-blind, randomised, placebo-controlled clinical trial of nintedanib in patients with fibrosing chILD (1199-0337 or InPedILD; ClinicalTrials.gov: NCT04093024). Male or female children and adolescents aged 6-17 years (≥30; including ≥20 adolescents aged 12-17 years) with clinically significant fibrosing ILD will be randomised 2:1 to receive oral nintedanib or placebo on top of standard of care for 24 weeks (double-blind), followed by variable-duration nintedanib (open-label). Nintedanib dosing will be based on body weight-dependent allometric scaling, with single-step dose reductions permitted to manage adverse events. Eligible patients will have evidence of fibrosis on high-resolution computed tomography (within 12 months of their first screening visit), FVC ≥25% predicted, and clinically significant disease (Fan score of ≥3 or evidence of clinical progression over time). Patients with underlying chronic liver disease, significant pulmonary arterial hypertension, cardiovascular disease, or increased bleeding risk are ineligible. The primary endpoints are pharmacokinetics and the proportion of patients with treatment-emergent adverse events at week 24. Secondary endpoints include change in FVC% predicted from baseline, Pediatric Quality of Life Questionnaire, oxygen saturation, and 6-min walk distance at weeks 24 and 52. Additional efficacy and safety endpoints will be collected to explore long-term effects.
[The perinatal risk factors of periventricular leukomalacia (PVL) in premature infants]. (1995)

Periventricular leukomalacia (PVL) has recently been recognized as an important risk factor in neurological impairment of the premature infant. We studied 29 PVL cases concerning perinatal risk factors retrospectively comparing them with a non-PVL matched control group. Variable decelerations were more frequently observed with statistical significance in the PVL group in the intrapartum period. There was no significant difference between the two groups in the appearance of late deceleration. A lower incidence of RDS, a higher incidence of low Apgar score, a longer period of ventilation and oxygen inhalation and a more persistent presence of apneic spells were documented in the PVL group with statistical significance. Our study suggests the significance of variable deceleration as a risk factor in the occurrence of PVL in premature infants as well as other previously documented risk factors.
Feasibility of Pairing a Low-Cost Positive Displacement Pump With Low-Energy Pressure Compensating Drip Irrigation Emitters for Smallholder Farms in Africa (2019)

Abstract In low income countries, existing drip irrigation systems are cost prohibitive to many smallholder farmers. Companies are working to develop efficient, low-cost irrigation systems by using technologies such as positive displacement (PD) pumps and pressure compensating (PC) emitters. However, these two technologies have not been paired in an efficient and cost-effective manner. Here we describe a proof-of-concept pump control algorithm that demonstrates the feasibility of exploiting the physical relationship between the input electrical power to a PD pump and the hydraulic behavior of a system of PC emitters in order to determine the optimal pump operating point. The development and validation of this control algorithm was conducted in partnership with the Kenya-based irrigation company SunCulture. This control method is expected to reduce cost, improve system efficiency, and increase accessibility of irrigation systems to smallholder farmers.
An Innovative Dual-Rotor Axial-Gap Flux-Switching Permanent-Magnet Machine Topology With Hybrid Excitation (2018)

In this paper, a novel dual-rotor axial-gap flux-switching permanent-magnet machine with dc excitation winding is proposed. First, the topology and operation principles of the proposed topology are clarified. Basic design equations and parameters are provided, and the electromagnetic analyses of the proposed flux-switching machine with 3-D FEA are performed. Parametric optimizations using 3-D FEA are completed for different dc excitations. A prototype machine is manufactured, tested, and validated. It is shown that the air-gap flux of the proposed axial-gap machine can be controlled in a wide range compared to conventional surface magnet machines.
Identification of Two Tamoxifen Target Proteins by Photolabeling with 4-(2-Morpholinoethoxy)benzophenone (2002)

Our quest to identify target proteins involved in the activity of tamoxifen led to the design of photoaffinity ligand analogues of tamoxifen able to cross-link such proteins. A new tritiated photoprobe, 4-(2-morpholinoethoxy)benzophenone (MBoPE), was synthesized and used to identify proteins involved in tamoxifen binding in rat liver. MBoPE, which has structural features in common with the potential antagonist of the intracellular histamine receptor (N,N-diethyl-2-[(4-phenylmethyl)phenoxy]ethanamine HCl: DPPE) is unable to bind the estrogen receptor although it does compete with tamoxifen for an antiestrogen binding site (AEBS). This tritiated benzophenone derivative was obtained by metal-catalyzed halogen-tritium replacement reaction. Because of its high specific activity, four target proteins could be photolabeled, three of which were identified with M(r) of 60,000, 49,500, and 14,000, while the fourth at 27,500 was in too low an amount and could not be sequenced. The 49.5 kDa protein corresponded by mass spectrometry to the microsomal epoxide hydrolase already identified with an aryl azide photoprobe [Mesange, F., et al. (1998) Biochem. J. 334, 107-112]. The 60 and 14 kDa proteins were identified as the carboxylesterase (ES10) and the liver fatty acid binding protein (L-FABP), respectively. The inhibitory effect of tamoxifen on carboxylesterase activity and the competitive efficacy of oleic acid on [(3)H]tamoxifen binding suggest that both proteins are AEBS subunits. Moreover, treatment of hepatocytes with antisense mRNA directed against ES10 or L-FABP abolished both tamoxifen and MBoPE binding. On the basis of previous pharmacological arguments, the 27.5 kDa protein might correspond to the sigma I receptor. Altogether, these results confirm that the microsomal epoxide hydrolase is a target for tamoxifen and provide evidence of two new target proteins implicated in cell lipid metabolism.
Metabolic Tumor Profiling with pH, Oxygen, and Glucose Chemosensors on a Quantum Dot Scaffold (2013)

Acidity, hypoxia, and glucose levels characterize the tumor microenvironment rendering pH, pO2, and pGlucose, respectively, important indicators of tumor health. To this end, understanding how these parameters change can be a powerful tool for the development of novel and effective therapeutics. We have designed optical chemosensors that feature a quantum dot and an analyte-responsive dye. These noninvasive chemosensors permit pH, oxygen, and glucose to be monitored dynamically within the tumor microenvironment by using multiphoton imaging.
Activated Notch signaling augments cell growth in hepatocellular carcinoma via up-regulating the nuclear receptor NR4A2 (2017)

Hepatocellular carcinoma (HCC) is one of the most malignant cancers. Conventional therapies are limited due to the human liver being such a unique organ and easily showing side-effects. The unclear molecular mechanisms are tough challenges for scientists searching for new and effective anti-HCC targeting drugs. We identified that the nuclear receptor NR4A2 is a novel oncogene in HCC progression. In this study, we show that NR4A2 and the notch recceptor Notch1 were expressed highly in primary HCC tissues and immortal HCC cells by using qPCR, western blot and immuno-histochemistry assays. Both genes were observed to stimulate HCC cell proliferation, anti-apoptosis and cell cycle arrest by using cell proliferation assays and FACS assays. We also observed that the four notch receptor subtypes (Notch1-4) displayed different effects on HCC cell growth. The over-expression of Notch1 by transiently transfecting the intracellular domain of Notch1 (ICN1, Notch1 active form) increased the expression of NR4A2, with the knockdown of Notch1 decreasing NR4A2. This indicates that NR4A2 is one of the Notch-mediated downstream genes. Moreover, both NR4A2 and Notch1 suppressed the expression of tumor suppressors p21 and p63. These findings support that Notch1/NR4A2 co-regulate HCC cell functions by playing oncogenic roles and regulating the associated downstream signaling pathways. Novel Notch1/NR4A2-mediated oncogenic signaling may provide us a great opportunity for anti-HCC drug development.