gebhart/patrepeval huggingface dataset:
Phthalimide as a versatile pharmacophore scaffold: Unlocking its diverse biological activities (2023)

Phthalimide, a pharmacophore exhibiting diverse biological activities, holds a prominent position in medicinal chemistry. In recent decades, numerous derivatives of phthalimide have been synthesized and extensively studied for their therapeutic potential across a wide range of health conditions. This comprehensive review highlights the latest developments in medicinal chemistry, specifically focusing on phthalimide-based compounds that have emerged within the last decade. These compounds showcase promising biological activities, including anti-inflammatory, anti-Alzheimer, antiepileptic, antischizophrenia, antiplatelet, anticancer, antibacterial, antifungal, antimycobacterial, antiparasitic, anthelmintic, antiviral, and antidiabetic properties. The physicochemical profiles of the phthalimide derivatives were carefully analyzed using the online platform pkCSM, revealing the remarkable versatility of this scaffold. Therefore, this review emphasizes the potential of phthalimide as a valuable scaffold for the development of novel therapeutic agents, providing avenues for the exploration and design of new compounds.
Pathways (2015)

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Enantiomeric Synthesis of d- and l-Cyclopentenyl Nucleosides and Their Antiviral Activity Against HIV and West Nile Virus (2001)

Enantiomeric synthesis of D- and L-cyclopentenyl nucleosides and their antiviral activity against HIV and West Nile virus are described. The key intermediate (-)- and (+)-cyclopentenyl alcohols (7 and 15) were prepared from D-gamma-ribonolactone and D-ribose, respectively. Coupling of 7 with appropriately blocked purine and pyrimidine bases via the Mitsunobu reaction followed by deprotection afforded the target L-(+)-cyclopentenyl nucleosides (24-28, 31, 33, and 36). D-(-)-Cyclopentenyl nucleosides (1, 40, 43, and 52-56) were also prepared by a similar procedure for L-isomers from 15. The synthesized compounds were evaluated for their antiviral activity against two RNA viruses: HIV and West Nile virus. Among the synthesized D-(-)-nucleosides, adenine (1, neplanocin A), cytosine (55, CPE-C), and 5-fluorocytosine (56) analogues exhibited moderate to potent anti-HIV activity (EC(50) 0.1, 0.06, and 5.34 microM, respectively) with significant cytotoxicity in PBM, Vero, and CEM cells. Also, cytosine (55) and 5-fluorocytosine (56) analogues exhibited the most potent anti-West Nile virus activity (EC(50) 0.2-3.0 and 15-20 microM, respectively). Among L-(+)-nucleosides, only the cytosine (27) analogue exhibited weak anti-HIV activity (EC(50) 58.9 microM).
Supplementary Table 1 from Evasion of Innate Immunity Contributes to Small Cell Lung Cancer Progression and Metastasis (2023)

&lt;p&gt;Patient classification&lt;/p&gt;
Ti7-containing, tetrahedral 36-tungsto-4-arsenate(iii) [Ti6(TiO6)(AsW9O33)4]20− (2014)

We have prepared the Ti7-containing, tetrahedral 36-tungsto-4-arsenate(III) [Ti6(TiO6)(AsW9O33)4](20-) (1) by a simple, one pot procedure. Polyanion 1 contains a novel Ti7-core, comprising a central TiO6 octahedron surrounded by six TiO5 square-pyramids, and capped by four {As(III)W9} trilacunary fragments. The title polyanion is solution-stable, as shown by (183)W NMR and mass spectrometry, and exhibits interesting biological properties.
Synthesis of Carbon Nanotubes Using Layered Double Hydroxide with Various Metal Compositions as Catalyst Precursors (2023)

The synthesis of Ni-Al, Mg-Al, Mg-Fe, and Co-Al layered double hydroxides (LDHs) by a hydrothermal (HT) or homogeneous precipitation method using urea (UR), and the catalytic precursors of LDHs for the highly efficient synthesis of carbon nanotubes (CNTs) by water-assisted chemical vapor deposition (CVD) were investigated. CNTs could be efficiently synthesized by using LDH of different metal composites as the catalyst precursor, especially CNTs production was higher in the Co-Al LDH. The CNTs were synthesized by water-assisted CVD method using LDH as a catalyst precursor. The LDH platelet crystals were catalyzed by a reduction process, and then a carbon source was introduced so that CNTs grew from the LDH platelet crystals.
Complex (2016)

In the past, aggregation and self-assembly have been associated principally with micellar and colloidal systems of molecules; however, with the advent of supramolecular chemistry, molecular self-assembly has been opened to a much wider understanding that has facilitated access to a variety of different shapes and sizes, along with the construction of new and fascinating molecular topologies. This document aims at defining more than 150 terms related to aggregation and self-assembly in the particular case of macromolecules. The list is restricted to the most commonly encountered terms.
Location-aware Machine Learning Mechanisms (D4.3) (2019)

This deliverable comprehends the outcome of T4.4 and will report the implementation of the location-aware machine learning mechanisms.
Supplementary Tables 1-2 from <i>Pten</i> Inactivation Accelerates Oncogenic <i>K-ras</i>–Initiated Tumorigenesis in a Mouse Model of Lung Cancer (2023)

Supplementary Tables 1-2 from &lt;i&gt;Pten&lt;/i&gt; Inactivation Accelerates Oncogenic &lt;i&gt;K-ras&lt;/i&gt;–Initiated Tumorigenesis in a Mouse Model of Lung Cancer
Correlation of Positron Annihilation and Other Dynamic Properties in Small Molecule Glass-Forming Substances (2001)

Positron annihilation spectroscopy is used to characterize the ortho-positronium lifetime, tau(3), in a broad range of small molecule organic glasses over a wide temperature range. The magnitude and thermal variations of tau(3) reflect changes in the dielectric alpha-relaxation time tau(alpha) and its non-Arrhenius or "fragile" characteristics. tau(3) also displays striking similarities with the fast relaxations reflected in the hydrogen-weighted mean square atomic displacements <u(2)>. The parallel temperature variations of <u(2)(T/T(g))>, tau(3)(T/T(g)), and tau(alpha)(T/T(g)), and their similar patterns of change between the different glasses, are discussed in terms of anharmonicity in the intermolecular caging potentials and the subnanometer density heterogeneities.
Golgi phosphoprotein 2 (GOLPH2) expression in liver tumors and its value as a serum marker in hepatocellular carcinomas # (2009)

GOLPH2 protein is highly expressed in tissues of HCC and BDC. GOLPH2 protein levels are detectable and quantifiable in sera by ELISA. In patients with hepatitis C, serial ELISA measurements in the course of the disease appear to be a promising complementary serum marker in the surveillance of HCC. GOLPH2 should be further evaluated as a serum tumor marker in BDC on a larger scale.
Flexible Intramedullary Nail Removal Using a Broken Screw Removal Set (2006)

The use of flexible titanium intramedullary nails for management of pediatric long bone fractures and some adult fractures has become common. Nail removal after union can be challenging and often requires a larger exposure than nail placement to allow the insertion of grasping devices, such as pliers. A percutaneous technique for the removal of flexible intramedullary nails using extraction bolts from a broken screw removal set is presented. The technique is especially useful when the end of the nail is not prominent and where a hollow reamer from the same set can expose the nail end for the extraction bolt to be used.
CREBBP and STAT6 co-mutation and 16p13 and 1p36 loss define the t(14;18)-negative diffuse variant of follicular lymphoma (2020)

Abstract The diffuse variant of follicular lymphoma (dFL) is a rare variant of FL lacking t(14;18) that was first described in 2009. In this study, we use a comprehensive approach to define unifying pathologic and genetic features through gold-standard pathologic review, FISH, SNP-microarray and next-generation sequencing of 16 cases of dFL. We found unique morphologic features, including interstitial sclerosis, microfollicle formation, and rounded nuclear cytology, confirmed absence of t(14;18) and recurrent deletion of 1p36, and showed a novel association with deletion/CN-LOH of 16p13 (inclusive of CREBBP, CIITA and SOCS1 ). Mutational profiling demonstrated near-uniform mutations in CREBBP and STAT6 , with clonal dominance of CREBBP , among other mutations typical of germinal-center B-cell lymphomas. Frequent CREBBP and CIITA co-deletion/mutation suggested a mechanism for immune evasion, while subclonal STAT6 activating mutations with concurrent SOCS1 loss suggested a mechanism of BCL-xL/BCL2L1 upregulation in the absence of BCL2 rearrangements. A review of the literature showed significant enrichment for 16p13 and 1p36 loss/CN-LOH, STAT6 mutation, and CREBBP and STAT6 co-mutation in dFL, as compared to conventional FL. With this comprehensive approach, our study demonstrates confirmatory and novel genetic associations that can aid in the diagnosis and subclassification of this rare type of lymphoma.
Scientific civility and academic performance (2023)

In modern science, interdisciplinary and collaborative research is encouraged among scientists to solve complex problems. However, when the time comes to measure an individual's academic productivity, collaborative efforts are hard to conceptualize and quantify. In this study, we hypothesized that a social behavior coined "scientific civility", which encompasses civility, collaboration, cooperation, or a combination of these, enhances an individual's productivity influencing their academic performance. To facilitate recognition of this unique attribute within the scientific environment, we developed a new indicator: the <i>C</i> score. We examined publicly available data from 1000 academic scientists at the individual-level, focusing on their scholarly output and collaborative networks as a function of geographic distribution and time. Our findings strongly suggest that the <i>C</i> score gauges academic performance from an integral perspective based on a synergistic interaction between productivity and collaborative networks, prevailing over institutionally limited economic resources and minimizing inequalities related to the length of individual's academic career, field of investigation, and gender.
Online Monitoring of Styrene Polymerization in Miniemulsion by Hyperpolarized129Xenon NMR Spectroscopy (2012)

Online monitoring of a miniemulsion polymerization of styrene by hyperpolarized 129Xe NMR spectroscopy is presented. The chemical shift of 129Xe directly reports on the monomer/polymer ratio in the reaction mixture and therefore on the conversion of the reaction. The method allows for monitoring the progress of a polymerization with high time resolution and without sample extraction. The results obtained by 129Xe NMR spectroscopy were successfully validated by comparison with results of calorimetry. Further characterization of the polymer dispersions with regard to the solids content and the particle diameters proved the comparability of both methods. Small deviations in the kinetic data and the properties of the polymer suspension from both methods are explained by the loss of monomer during the 129Xe NMR experiments due to the used setup. In the future, 129Xe NMR might also be applied for online monitoring of other chemicals reactions, e.g., allowing for determining the kinetics of thermoneutral reactions.
Cost-Effective Treatment of Existing Guardrail Systems (2013)

A cost-effective means for upgrading existing barrier systems, which have deviations from standard practice (i.e., low-rail heights, antiquated end treatments, and improper installation) does not exist. As a result these systems remain on U.S. highways. Barrier systems with deviations from current practice may not perform as intended, thus resulting in fatalities and serious injuries from impacts with these safety devices. It is not plausible to eliminate fatalities and serious injuries from all guardrail impacts; but these numbers could be significantly reduced with the proper design, testing, installation, and maintenance of guardrail systems. This report offers recommendations for upgrading W-beam guardrails based on benefit-to-cost analyses using the Roadside Safety Analysis Program (RSAP). This analyses was developed to simulate the most frequent and possible scenarios of existing W-beam barrier systems with deviations from standard practice. Before the analysis could be run, the field conditions and deviations from standard practice needed to be recognized and determined from a field investigation. A field investigation was conducted on rural arterial highways in the state of Kansas to determine the nature of existing barrier systems with deviations from standard practice. For the study, the most prominent barrier was the strong-post, W-beam guardrail. The major deviations of the existing W-beam were low top-rail mounting-height and antiquated end treatments (i.e. turned-down and blunt-end terminals). The W-beam guardrail with low rail heights and turned-down and blunt-end terminals were the focus of the RSAP analysis. The varying guardrail heights were modeled in RSAP by changing the level of containment of the W-beam guardrail, and the antiquated end treatments were predefined features. The roadway and roadside features including hazards (culverts and slopes) were modeled after those found in the field investigation. Finally, cost-effective safety treatments were recommended for existing W-beam guardrail with low rail height and turned-down or blunt-end terminals which shielded culverts and slopes. Advisor: Dean L. Sicking
Measuring the Course of Alzheimer's Disease (1988)

On two occasions one year apart, the cognitive performance of 12 patients with presenile dementia Alzheimer type (ATD) and 14 with alcoholic Korsakoff syndrome (KS) was assessed both psychologically using the Christensen version of Luria's neuropsychological investigation and physiologically by measuring P300 (P3) and other long-latency auditory event-related potentials. All patients with ATD showed evidence of psychological deterioration and most also showed changes in auditory P3, whereas on all measures the KS group remained essentially unchanged. The extent of the changes in the ATD group varied, but in general those patients with most psychological deterioration also displayed the biggest changes in P3 wave form. There were two patterns of decline: a majority followed the traditional progressive course associated with Alzheimer disease; and in a minority, decline was slower. Methods for determining the rate of decline in individual patients with ATD, together with the prognostic implications, are discussed.
Pushing the limits of artificial vision (2004)

The field of neural prostheses has made significant strides toward restoring damaged or lost nervous system function for millions of people. These advances have led to the development of selective electrical interfaces that communicate directly with nerve cells to modulate neural processes rationally. The first neural prosthesis developed was the cardiac pacemaker, which has become pervasive in society. The pacemaker also provides the promise that such an approach can address higher order neural dysfunctions. Technologies borrowed from the semiconductor industry have allowed researchers to micro fabricate devices with active elements on the length scale of nerve cells. This size capability has led to the development of the cochlear implant, which has restored hearing in thousands of deaf patients. Restoring more complex sensory functions, such is vision, provides greater engineering challenges, but achieving them is within our grasp. Current approaches to achieving artificial vision are discussed, along with strategies being used to push the capability limits of these prostheses even further.
Melanoma-associated B cells are distinct from peripheral blood-derived B cells, and may serve as a source of tumor-targeting antibodies (2013)

Meeting abstracts The tumor microenvironment contains a complex mix of cell types that can modulate the anti-tumor immune response. In the present study we performed a characterization of tumor-associated B cells, aimed at understanding the biological implications of B cell infiltration in
Modeling ON Cone Bipolar Cells for Electrical Stimulation (2021)

Retinal prosthetic systems have been developed to help blind patients suffering from retinal degenerative diseases gain some useful form of vision. Various experimental and computational studies have been performed to test electrical stimulation strategies that can improve the performance of these devices. Detailed computational models of retinal neurons, such as retinal ganglion cells (RGCs) and bipolar cells (BCs), allow us to explore the mechanisms underlying the response of cells to electrical stimulation. While electrophysiological studies have shown the presence of voltage-gated ionic channels in different regions of BCs, many of the existing cone BCs models are assumed to be passive or only contain calcium channels at the synaptic terminals. We have utilized our Admittance Method (AM)-NEURON computational platform to implement a more realistic model of ON-BCs. Our model closely replicates the recent patch-clamp experiments directly measuring the response of ON-BCs to epiretinal electrical stimulation and thereby predicts the regional distributions of the ionic channels. Our computational results further indicate that outward potassium current strongly contributes to the depolarizing voltage transient of ON-BCs in response to electrical stimulation.
Supplementary Table 1 from <i>Mist1-Kras<sup>G12D</sup></i> Knock-In Mice Develop Mixed Differentiation Metastatic Exocrine Pancreatic Carcinoma and Hepatocellular Carcinoma (2023)

Supplementary Table 1 from &lt;i&gt;Mist1-Kras&lt;sup&gt;G12D&lt;/sup&gt;&lt;/i&gt; Knock-In Mice Develop Mixed Differentiation Metastatic Exocrine Pancreatic Carcinoma and Hepatocellular Carcinoma
A realtime software MPEG transcoder using a novel motion vector reuse and a SIMD optimization techniques (1999)

A realtime software MPEG transcoder has been developed. Novel motion vector reuse and SIMD optimization techniques are introduced to accelerate the transcoder without any quality degradation. Mean absolute error approximation criteria are employed in the reuse technique to refine scaled motion vectors. The developed transcoder on a Pentium II 266 MHz machine runs 2.5 times as fast as realtime, when scaling an MPEG-1 bitstream to half size.
Motility of fibronectin receptor-deficient cells on fibronectin and vitronectin: collaborative interactions among integrins [published erratum appears in J Cell Biol 1992 Jul;118(1):217] (1992)

Cells are capable of adhering to and migrating on protein components of the extracellular matrix. These cell-matrix interactions are thought to be mediated largely through a family of cell surface receptors termed integrins. However, the manner in which individual integrins are involved in cell adhesion and motility has not been fully determined. To explore this issue, we previously selected a series of CHO variants that are deficient in expression of the integrin alpha 5 beta 1, the "classical" fibronectin receptor. Two sets of subclones of these variants were defined which respectively express approximately 20% or 2% of fibronectin receptor on the cell surface when compared to wild-type cells (Schreiner, C. L., J. S. Bauer, Y. N. Danilov, S. Hussein, M. M. Sczekan, and R. L. Juliano. 1989. J. Cell Biol. 109:3157-3167). In the current study, the variant clones were tested for haptotactic motility on substrata coated with fibronectin or vitronectin. Data from assays using fibronectin show that cellular motility of the 20% variants was substantially decreased (30-75% of wild type), while the motility of the 2% variants was nearly abolished (2-20% of wild type). Surprisingly, a similar pattern was seen for haptotactic motility of both 2% and 20% variants when vitronectin was used (approximately 20-30% of wild type). The reduced haptotactic motility of the fibronectin receptor-deficient variant clones on vitronectin was shown not to be due to reduced vitronectin receptor (alpha v beta 3) expression nor to a failure of these variants to adhere to vitronectin substrata. Transfection of the deficient variants with a cDNA for the human alpha 5 subunit resulted in normal levels of fibronectin receptor expression (as a human alpha 5/hamster beta 1 chimera) and restored the motility of the CHO variants on fibronectin and vitronectin. This indicates that expression of the alpha 5 subunit is required for normal haptotactic motility on vitronectin substrata and suggests that the fibronectin receptor (alpha 5 beta 1) plays a cooperative role with vitronectin receptors in cell motility.
Data for short and long-term prothrombotic biomarkers after cryoballoon and radiofrequency ablation (2019)

Data presented in this article are supplementary analyzed tables and individual raw data to our research article entitled "Short and long-term changes in platelet and inflammatory biomarkers after cryoballoon and radiofrequency ablation (Bin Waleed K et al., 2019) [1]". These supplementary analyzed tables and individual raw data included platelet activation biomarkers [P-selectin (CD62P), CD40 ligand (CD40L), platelet factor-4 (PF-4), mean platelet volume (MPV), platelet-leukocyte ratio (P-LCR), and platelet distribution width (PDW)]; and inflammatory biomarkers [high sensitivity CRP (hs-CRP) and interleukin-6 (IL-6)] after cryoballoon (CB) and radiofrequency (RF) ablation. The provided raw data are intended to show the difference at short and long-term in platelet and inflammatory biomarkers values between CB and RF ablation.
Visual-inertial ego-motion estimation for humanoid platforms (2012)

We describe an ego-motion estimation system developed specifically for humanoid robots, integrating visual and inertial sensors. It addresses the challenge of significant scale changes due to forward motion with a finite field of view by using recent sparse multi-scale feature tracking techniques. Additionally, it addresses the challenge of long-range temporal correlation due to walking gaits by employing a kinematic-statistical model that does not require accurate knowledge of the robot dynamics and calibration. Our system achieves performance comparable to the state of the art at a fraction of the (inertial measurement unit) cost, on a challenging dataset that we have created.