gebhart/patrepeval huggingface dataset:
Synthesis of phenstatin/isocombretastatin–chalcone conjugates as potent tubulin polymerization inhibitors and mitochondrial apoptotic inducers (2015)

A series of phenstatin/isocombretastatin–chalcones were synthesized and screened for their cytotoxic activity against various human cancer cell lines. Some representative compounds exhibited significant antiproliferative activity against a panel of sixty human cancer cell lines of the NCI, with GI50 values in the range of 0.11 to 19.0 μM. Three compounds (3b, 3c and 3e) showed a broad spectrum of antiproliferative efficacy on most of the cell lines in the sub-micromolar range. In addition, all the synthesized compounds (3a–l and 4a–l) displayed moderate to excellent cytotoxicity against breast cancer cells such as MCF-7 and MDA-MB-231 with IC50 values in the range of 0.5 to 19.9 μM. Moreover, the tubulin polymerization assay and immunofluorescence analysis results suggest that some of these compounds like 3c and 3e exhibited significant inhibitory effect on the tubulin assembly with an IC50 value of 0.8 μM and 0.6 μM respectively. A competitive binding assay suggested that these compounds bind at the colchicine-binding site of tubulin. A cell cycle assay revealed that these compounds arrest at the G2/M phase and lead to apoptotic cell death. Furthermore, this was confirmed by Hoechst 33258 staining, activation of caspase 9, DNA fragmentation, Annexin V-FITC and mitochondrial membrane depolarization. Molecular docking studies indicated that compounds like 3e occupy the colchicine binding site of tubulin.
Graph Signal Processing for Geometric Data and Beyond: Theory and Applications (2020)

Geometric data acquired from real-world scenes, e.g., 2D depth images, 3D point clouds, and 4D dynamic point clouds, have found a wide range of applications including immersive telepresence, autonomous driving, surveillance, etc. Due to irregular sampling patterns of most geometric data, traditional image/video processing methodologies are limited, while Graph Signal Processing (GSP) -- a fast-developing field in the signal processing community -- enables processing signals that reside on irregular domains and plays a critical role in numerous applications of geometric data from low-level processing to high-level analysis. To further advance the research in this field, we provide the first timely and comprehensive overview of GSP methodologies for geometric data in a unified manner by bridging the connections between geometric data and graphs, among the various geometric data modalities, and with spectral/nodal graph filtering techniques. We also discuss the recently developed Graph Neural Networks (GNNs) and interpret the operation of these networks from the perspective of GSP. We conclude with a brief discussion of open problems and challenges.
The Brownian Bridge for Space–Time Interpolation (2022)

chapter Share on The Brownian Bridge for Space–Time Interpolation Author: John Krumm View Profile Authors Info & Claims Spatial Gems, Volume 1August 2022 Pages 73–84https://doi.org/10.1145/3548732.3548742Published:08 August 2022Publication History 0citation1DownloadsMetricsTotal Citations0Total Downloads1Last 12 Months1Last 6 weeks1 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my Alerts New Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteGet Access
A probabilistic framework for automatic prostate segmentation with a statistical model of shape and appearance (2011)

International audience
Visual marker and Agrobacterium‐delivered recombinase enable the manipulation of the plastid genome in greenhouse‐grown tobacco plants (2012)

Successful manipulation of the plastid genome (ptDNA) has been carried out so far only in tissue-culture cells, a limitation that prevents plastid transformation being applied in major agronomic crops. Our objective is to develop a tissue-culture independent protocol that enables manipulation of plastid genomes directly in plants to yield genetically stable seed progeny. We report that in planta excision of a plastid aurea bar gene (bar(au) ) is detectable in greenhouse-grown plants by restoration of the green pigmentation in tobacco leaves. The P1 phage Cre or PhiC31 phage Int site-specific recombinase was delivered on the Agrobacterium T-DNA injected at the axillary bud site, resulting in the excision of the target-site flanked marker gene. Differentiation of new apical meristems was forced by decapitating the plants above the injection site. The new shoot apex that differentiated at the injection site contained bar(au)-free plastids in 30-40% of the injected plants, of which 7% transmitted the bar(au)-free plastids to the seed progeny. The success of obtaining seed with bar(au)-free plastids depended on repeatedly forcing shoot development from axillary buds, a process that was guided by the size and position of green sectors in the leaves. The success of in planta plastid marker excision proved that manipulation of the plastid genomes is feasible within an intact plant. Extension of the protocol to in planta plastid transformation depends on the development of new protocols for the delivery of transforming DNA encoding visual markers.
[Preliminary study of establishing and assessing IBS-D model rats of gan stagnation and Pi deficiency syndrome]. (2013)

A new disease-syndrome-symptom integrated IBS-D animal model of GSPDS successfully established might be a better animal model used for studying IBS by Chinese medicine. However, further studies are needed.
Digital Signal Processing Research Program (1997)

Contains table of contents for Part III, table of contents for Section 1, an introduction and reports on seventeen research projects.
Figure S11 from AZD4320, A Dual Inhibitor of Bcl-2 and Bcl-x<sub>L</sub>, Induces Tumor Regression in Hematologic Cancer Models without Dose-limiting Thrombocytopenia (2023)

&lt;p&gt;Figure S11&lt;/p&gt;
Bone Remodeling after MR Imaging–guided High-Intensity Focused Ultrasound Ablation: Evaluation with MR Imaging, CT, Na18F-PET, and Histopathologic Examination in a Swine Model (2014)

MR imaging-guided HIFU ablation of bone may result in progressive remodeling, with both subcortical necrosis and subperiosteal new bone formation. This may be related to the use of high energies. MR imaging, CT, and PET are suitable noninvasive techniques to monitor bone remodeling after MR imaging-guided HIFU ablation.
Cultural landscapes as complex adaptive systems: the cases of northern Spain and northern Argentina (2012)

Traditionally, numerous studies that analysed the impact of human activities on ecosystems conceptualised humans either as external drivers of ecosystems (albeit not influenced by them) or as users of the environment (but not influencing it). However, in recent years, studies have changed their focus on the interdependency between social systems and ecosystems (Gunderson & Holling, 2002; Holling, 2001). In this sense, Farina (2000) highlights cultural landscapes as human land use systems shaped by the intricate relationship between social and ecological systems. They are the result of a slow co-evolution of both systems and they have taken centuries to reach their current configuration, reflecting a mutual adaptation of abiotic, biotic and cultural factors.
The effects of dexamethasone on bone fusion in an experimental model of posterolateral lumbar spinal arthrodesis (2001)

The corticosteroid agent dexamethasone inhibited bone graft incorporation in a rabbit model of single-level posterolateral lumbar spinal fusion, inducing a significantly higher rate of nonunion, compared with that in saline-treated control animals.
Systematic re-evaluation of genes from candidate gene association studies in migraine using a large genome-wide association data set (2015)

The available migraine GWAS data provide no clear evidence for involvement of the previously reported most promising candidate genes in migraine.
Tunable lumped components with applications to reconfigurable MEMS filters (2002)

This paper presents a novel design scheme for tunable coplanar waveguide components with applications to compact lumped-element MEMS reconfigurable filters. Shunt MEMS switches are employed for tuning the values of lumped components frequently encountered in microwave integrated circuits. In particular, shunt capacitors, series inductors and shunt inductive stubs are the main tunable circuit elements utilized in this work. Furthermore, accurate equivalent circuits that include the most important parasitics introduced by the tuning mechanism are provided. Finally, the proposed method is applied to the design and implementation of very compact low-pass and bandpass tunable filters. The very high tunability range, the compactness of the resulting networks and their very wideband response constitute the main advantages of this technique.
Studies on Calcium Ion Selectivity of ZnO Nanowire Sensors Using Ionophore Membrane Coatings (2008)

Zinc oxide nanorods with 100 nm diameter and 900 nm length were grown on the surface of a silver wire (0.25 mm in diameter) with the aim to produce electrochemical nanosensors. It is shown that the ZnO nanorods exhibit a Ca 2+ ‐dependent electrochemical potentiometric behavior in an aqueous solution. The potential difference was found to be linear over a large logarithmic concentration range (1 μ M to 0.1 M) using Ag/AgCl as a reference electrode and the response time was less than one minute. In order to adapt the sensors for calcium ion measurements in biological fluids with sufficient selectivity and stability, plastic membrane coatings containing ionophores were applied. These functionalized ZnO nanorods sensors showed a high sensitivity (26.55 mV/decade) and good stability.
Origin of the anomalous temperature dependence of coercivity in soft ferromagnets (2014)

We report on the origin of the anomalous temperature dependence of coercivity observed in some soft ferromagnets by studying the magnetic and electronic properties of FeZr films doped using ion implantation by H, He, B, C, and N. The anomalous increase of the coercivity with temperature was observed only in the C- and B-doped samples. Using x-ray photoelectron spectroscopy, we show that the anomalous behavior of the coercivity coincides with the occurrence of an electron charge transfer for those implanted samples. The origin of the anomaly is discussed in terms of (i) magnetic softness, (ii) nature of the Fe-C and -B covalent bonds, and (iii) large charge transfer.
Sense Cosuppression of Flower Color Genes: Metastable Morphology-based Phenotypes and the Prepattern-threshold Hypothesis (1996)

In flowering plants, transformation with a transgene whose coding sequence is homologous to an endogenous plant gene, and whose expression is driven in the sense orientation by a strong promoter, often produces the opposite outcome of that which was intended. Instead of over-expression of the gene product, transcripts from both the endogenous gene and the transgene are found to be “cosuppressed,” resulting in a null phenotype. Nuclear run-on experiments have shown that the cosuppressed state is posttranscriptional; experiments that alter transgene dosage suggest that the induction of cosuppression is threshold-dependent; and cytoplasmic RNA viruses that are homologous to a strongly expressed nuclear gene are subject to cosuppression, suggesting that it occurs in the cytoplasm (de Carvalho et al. 1992de Carvalho et al. 1995; Lindbo et al. 1993; Smith et al. 1994; Mueller et al. 1995; Goodwin et al. 1996). A preferred interpretation of these observations, presented in detail by Smith et al. (1994), is that the production of nuclear transcripts to levels exceeding some threshold concentration somehow activates a sequence-specific turnover process that acts in the cytoplasm. This phenomenon is referred to variously as “sense suppression,” “sense cosuppression,” or simply “cosuppression.” It can be distinguished from promoter-homology-dependent suppression, a gene silencing phenomenon that occurs at the transcriptional level, requires promoter homology, and is thought to be a consequence of ectopic pairing (for review, see Matzke and Matzke 1995; see also Vaucheret et al.; Meyer; both this volume). Sense cosuppression also can be distinguished from suppression caused by antisense transgenes (Jorgensen et al. 1996).
Physiological and Metabolomic Analysis of Issatchenkia orientalis MTY1 With Multiple Tolerance for Cellulosic Bioethanol Production (2017)

Yeast with multiple tolerance onto harsh conditions has a number of advantages for bioethanol production. In this study, an alcohol yeast of Issatchenkia orientalis MTY1 is isolated in a Korean winery and its multiple tolerance against high temperature and acidic conditions is characterized in microaerobic batch cultures and by metabolomic analysis. In a series of batch cultures using 100 g L<sup>-1</sup> glucose, I. orientalis MTY1 possesses wider growth ranges at pH 2-8 and 30-45 °C than a conventional yeast of Saccharomyces cerevisiae D452-2. Moreover, I. orientalis MTY1 showes higher cell growth and ethanol productivity in the presence of acetic acid or furfural than S. cerevisiae D452-2. I. orientalis MTY1 produces 41.4 g L<sup>-1</sup> ethanol with 1.5 g L<sup>-1</sup> h<sup>-1</sup> productivity at 42 °C and pH 4.2 in the presence of 4 g L<sup>-1</sup> acetic acid, whereas a thermo-tolerant yeast of Kluyvermyces marxianus ATCC36907 does not grow. By metabolomics by GC-TOF MS and statistical analysis of 125 metabolite peaks, it is revealed that the thermo-tolerance of I. orientalis MTY1 might be ascribed to higher contents of unsaturated fatty acids, purines and pyrimidines than S. cerevisiae D452-2. Conclusively, I. orientalis MTY1 could be a potent workhorse with multiple tolerance against harsh conditions considered in cellulosic bioethanol production.
A new readout strategy for fluxgate sensor (2004)

Aaf - In this paper a new class of Fluxcafe sensor based on a In particular the case of hysteretic input-output Residence Time bused readout strategy is discussed This characteristic, which can be modelled with a bistable potential technique improvesperformances of WO-state device in respect to energy hnction v(~) reported in figure la, is taken into conventional magnetic sensor. In parficular, a reduced noisefloor [31, Examples include ferroelectric sensors, and low power feafure are gained The suitabilify ofsuch strategy Moreover, rules are given, which can be used during the device with is shown by using both simula,ions andpreljmjna,.,, erperiments. mechanical Sensors, piezoelectric devices and can be successfu'ly to F1uxGate magnetic desim. an hysteretic magnetic core.
Highly anti‐Selective SN2′ Substitutions of Chiral Cyclic 2‐Iodo‐allylic Alcohol Derivatives with Mixed Zinc—Copper Reagents. (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.
Polymorphisms of estrogen metabolism-related genes ESR1 , UGT2B17 , and UGT1A1 are not associated with osteoporosis in artificial menopausal Japanese women (2015)

These results suggest that the ESR1, UGT2B17, and UGT1A1 polymorphisms are not genetic factors affecting osteoporosis in postmenopausal Japanese women.
648. Urinary Tract-Associated Escherichia coli Bacteraemia Strains Are Genetically More Virulent than Those Originating From Non-urinary and Neutropaenic Infective Foci (2018)

Escherichia coli is the leading cause of bacteremia with multi-drug-resistant strains proving increasingly problematic. Knowledge of the strain diversity associated with site-specific infections will inform the development of new preventative strategies, e.g. vaccines. We hypothesized that virulence factor (VF) scores of bacteremia strains from neutropenia patients with unknown infective foci (NPUIF—likely due to bowel translocation) would be lower than those from immunocompetent patients. Immunocompetent (n = 49) and neutropaenic adults (n = 8) with E. coli bacteremia were prospectively enrolled and the focus of bacteremia determined. Neutropenia patients were enrolled only if there was no identifiable infective focus. Multi-locus sequence typing and VF score (31 known VFs included) data were derived in silico following whole-genome sequencing and the results compared between patient groups. Bacteremia strains from immunocompetent patients with urinary tract infective foci (UTI-foci) harbored significantly more VFs (median VF score 16, range 8–24) than strains from both immunocompetent patients with non-UTI-foci (10, 2–22, P = 0.006) and NPUIF (8, 3–13, P < 0.0001). VF scores of strains from non-UTI-foci were not significantly different to those from NPUIF (10, 2–22 vs. 8, 3–13, respectively. P = 0.28). Logistic regression analysis demonstrated that VF score (OR 1.21, 95% CIs 1.01–1.46, P = 0.039) and recurrent urinary tract infection/urinary tract infection (OR 12.82, 95% CIs 1.24–132.65, P = 0.032) were independent predictors of bacteremia secondary to UTI-foci vs. non-UTI-foci in immunocompetent patients. Hence, for every unit increase in VF score, the odds of a bacteremia strain originating from UTI-foci increased by 1.21. papA, papC, papE/F, papG, agn43, tia, iut, fyuA, kpsM and sat were significantly more prevalent amongst strains associated with UTI-foci vs. non-UTI-foci amongst immunocompetent patients. papC, papE/F, papG, agn43, tia, fyuA, hlyA, usp and clb were significantly more prevalent amongst UTI-foci- vs. NPUIF-associated strains. UTI-associated E. coli bacteremia strains have distinct VF profiles from those originating from non-UTI-foci and NPUIF. Future vaccines must consider this diversity to ensure adequate coverage of strains associated with site-specific disease. All authors: No reported disclosures.
In vivo flow cytometric Pig‐a and micronucleus assays: Highly sensitive discrimination of the carcinogen/noncarcinogen pair benzo(a)pyrene and pyrene using acute and repeated‐dose designs (2012)

Combining multiple genetic toxicology endpoints into a single in vivo study, and/or integrating one or more genotoxicity assays into general toxicology studies, is attractive because it reduces animal use and enables comprehensive comparative analysis using toxicity, metabolism, and pharmacokinetic information from the same animal. This laboratory has developed flow cytometric scoring techniques for monitoring two blood-based genotoxicity endpoints-micronucleated reticulocyte frequency and gene mutation at the Pig-a locus-thereby making combination and integration studies practical. The ability to effectively monitor these endpoints in short-term and repeated dosing schedules was investigated with the carcinogen/noncarcinogen pair benzo(a)pyrene (BP) and pyrene (Pyr). Male Sprague-Dawley rats were treated via oral gavage for 3 or 28 consecutive days with several dose levels of Pyr, including maximum tolerated doses. BP exposure was administered by the same route but at one dose level, 250 or 125 mg/kg/day for 3-day and 28-day studies, respectively. Serial blood samples were collected up to Day 45, and were analyzed for Pig-a mutation with a dual labeling method (SYTO 13 in combination with anti-CD59-PE) that facilitated mutant cell frequency measurements in both total erythrocytes and the reticulocyte subpopulation. A mutant cell enrichment step based on immunomagnetic column separation was used to increase the statistical power of the assay. BP induced robust mutant reticulocyte responses by Day 15, and elevated frequencies persisted until study termination. Mutant erythrocyte responses lagged mutant reticulocyte responses, with peak incidences observed on Day 30 of the 3-day study (43-fold increase) and on Day 42 of the 28-day study (171-fold increase). No mutagenic effects were apparent for Pyr. Blood samples collected on Day 4, and Day 29 for the 28-day study, were evaluated for micronucleated reticulocyte frequency. Significant increases in micronucleus frequencies were observed with BP, whereas Pyr had no effect. These results demonstrate that Pig-a and micronucleus endpoints discriminate between these structurally related carcinogenic and noncarcinogenic agents. Furthermore, the high sensitivity demonstrated with the enrichment protocol indicates that the Pig-a endpoint is suitable for both repeated-dose and acute studies, allowing integration of mutagenic and clastogenic endpoints into on-going toxicology studies, and use as a short-term assay that provides efficient screening and mechanistic information in vivo.
Ablation therapy for atrial fibrillation (AF) Past, present and future (2002)

Atrial fibrillation, the most common arrhythmia, is frequently disabling and drug resistant. Non-pharmacological approaches including surgery and catheter-based ablation have been developed for the most symptomatic patients. These new treatment strategies have dramatically increased our knowledge of the pathophysiology of this arrhythmia but most importantly demonstrated that atrial fibrillation is curable. These approaches are far from being perfect but good enough to be offered in routine practice to selected patients in experienced centers. The importance of pulmonary veins in the initiation of AF has clearly been demonstrated and their role in maintaining AF is likely. Most of the curative approaches are therefore based on their isolation. Future technical improvements based on presently applied concepts are likely to widen the indications for ablation therapy of AF.
Video E from Preclinical Development of MGC018, a Duocarmycin-based Antibody–drug Conjugate Targeting B7-H3 for Solid Cancer (2023)

&lt;p&gt;Co-culture of 5000 Hs700T parental cells and 5000 Hs700T B7-H3 KO/RFP cells in the presence of 6.7 nM MGC018&lt;/p&gt;
Neighbourhood-blocks motion vector estimation technique using pyramidal data structure (2002)

A pyramidal motion estimation technique that makes use of the motion correlation within a pyramidal level is proposed. In the proposed technique, motion vectors from neighbouring motion blocks are taken into consideration as possible candidates. This is done in lieu of scaling the motion vectors from the corresponding positions at the adjacent lower pyramidal level as the prediction motion vectors for the current pyramidal level (as performed in the conventional technique). Each of these candidate motion vectors is used as the prediction motion vector and refined, and the one that has the least matching distortion is chosen as the motion vector at the current pyramidal level. Compared to the conventional pyramidal motion estimation technique, the proposed method effectively overcomes the problem of propagation of false motion vectors. Simulation studies show that a substantial improvement is achieved in the performance, both in terms of the prediction mean square error and the number of coding bits for the motion vectors.