gebhart/patrepeval huggingface dataset:
DZ-2384 has a superior preclinical profile to taxanes for the treatment of triple-negative breast cancer and is synergistic with anti-CTLA-4 immunotherapy (2018)

Triple-negative breast cancer (TNBC) is typically aggressive, difficult to treat, and commonly metastasizes to the visceral organs and soft tissues, including the lungs and the brain. Taxanes represent the most effective and widely used therapeutic class in metastatic TNBC but possess limiting adverse effects that often result in a delay, reduction, or cessation of their use. DZ-2384 is a candidate microtubule-targeting agent with a distinct mechanism of action and strong activity in several preclinical cancer models, with reduced toxicities. DZ-2384 is highly effective in patient-derived taxane-sensitive and taxane-resistant xenograft models of TNBC at lower doses and over a wider range relative to paclitaxel. When comparing compound exposure at minimum effective doses relative to safe exposure levels, the therapeutic window for DZ-2384 is 14-32 compared with 2.0 and less than 2.8 for paclitaxel and docetaxel, respectively. DZ-2384 is effective at reducing brain metastatic lesions when used at maximum tolerated doses and is equivalent to paclitaxel. Drug distribution experiments indicate that DZ-2384 is taken up more efficiently by tumor tissue but at equivalent levels in the brain compared with paclitaxel. Selective DZ-2384 uptake by tumor tissue may in part account for its wider therapeutic window compared with taxanes. In view of the current clinical efforts to combine chemotherapy with immune checkpoint inhibitors, we demonstrate that DZ-2384 acts synergistically with anti-CTLA-4 immunotherapy in a syngeneic murine model. These results demonstrate that DZ-2384 has a superior pharmacologic profile over currently used taxanes and is a promising therapeutic agent for the treatment of metastatic TNBC.
Soft mold and gasbag pressure mechanism for patterning submicron patterns onto a large concave substrate (2006)

A gasbag pressure (GBP) mechanism has been developed for patterning submicron patterns onto large concave substrate. The GBP mechanism consists of a pressure gasbag and a vacuum chamber system. It provides gradual contact, uniform pressure, and intact contact for imprinting patterns in the soft mold onto a concave substrate. The patterns on the soft mold can be successfully replicated over an entire photoresist-coated concave substrate. The accuracy of replication has been experimentally evaluated.
Department of Energy Radiation Health Studies (1995)

The U.S. Department of Energy (DOE) and its predecessor agencies have been involved in research on the human health effects of exposure to ionizing radiation for more than 40 years. This long-term program began with studies of Japanese atomic bomb survivors and has since comprised studies of workers at nuclear weapons facilities, communities near those facilities, and populations potentially affected by the Chernobyl accident. In recent years the program has become more applied, with emphasis on descriptive studies and occupational health surveillance of workers, whereas the long-term, analytic research studies are being managed by the Department of Health and Human Services (HHS) under a Memorandum of Understanding (MOU). Data from these research activities are made available to the scientific community through the DOE's Comprehensive Epidemiologic Data Resource (CEDR), a public use database.
C9orf72 poly(PR) Dipeptide Repeats Disturb Biomolecular Phase Separation and Disrupt Nucleolar Function. White, M.R. et al. (2019)

Raw images associated with figures in "C9orf72 poly(PR) Dipeptide Repeats Disturb Biomolecular Phase Separation and Disrupt Nucleolar Function" White, M.R. et al.
Systems Biology for Organotypic Cell Cultures (2016)

Translating in vitro biological data into actionable information related to human health holds the potential to improve disease treatment and risk assessment of chemical exposures. While genomics has identified regulatory pathways at the cellular level, translation to the organism level requires a multiscale approach accounting for intra-cellular regulation, inter-cellular interaction, and tissue/organ-level effects. Tissue-level effects can now be probed in vitro thanks to recently developed systems of three-dimensional (3D), multicellular, “organotypic” cell cultures, which mimic functional responses of living tissue. However, there remains a knowledge gap regarding interactions across different biological scales, complicating accurate prediction of health outcomes from molecular/genomic data and tissue responses. Systems biology aims at mathematical modeling of complex, non-linear biological systems. We propose to apply a systems biology approach to achieve a computational representation of tissue-level physiological responses by integrating empirical data derived from organotypic culture systems with computational models of intracellular pathways to better predict human responses. Successful implementation of this integrated approach will provide a powerful tool for faster, more accurate and cost-effective screening of potential toxicants and therapeutics. On September 11, 2015, an interdisciplinary group of scientists, engineers, and clinicians gathered for a workshop in Research Triangle Park, North Carolina, to discuss this ambitious goal. Participants represented laboratory-based and computational modeling approaches to pharmacology and toxicology, as well as the pharmaceutical industry, government, non-profits, and academia. Discussions focused on identifying critical system perturbations to model, the computational tools required, and the experimental approaches best suited to generating key data. This consensus report summarizes the discussions held.
Supplemental figure 3 from YAP/TAZ-Mediated Upregulation of GAB2 Leads to Increased Sensitivity to Growth Factor–Induced Activation of the PI3K Pathway (2023)

&lt;p&gt;GAB2 mediates the effects of siYAP/TAZ on the PI3K/AKT pathway&lt;/p&gt;
Enhanced ultrasound‐induced apoptosis and cell lysis by a hypotonic medium (2004)

The results support the hypothesis that non-lethal hypotonia can enhance ultrasound-induced cell killing. These findings also suggest the 'sonomechanical' nature of the effects on the cells.
Reaction Rate Studies of the Acid Hydrolysis of Some Chromium(III) Complexes. II. The Acid Hydrolysis of Facial and of Meridional Triamminetriaquachromium(III) and of cis- and of trans-Tetraaminediaquachromium(III) Ions in Aqueous Perchloric Acid. (1974)

Die Hydrolyse der im Titel genannten Spezies wird in 0,5 bis 1,0m HClO4 unter Zusatz von NaClO4 im Temperaturbereich von 60 bis 80°C untersucht.
Codage de source zéro-erreur pour un réseau de Gray-Wyner lorsque l'information adjacente peut être présente (2022)

International audience
Template Deformation for Point Cloud Fitting (2006)

The reconstruction of high-quality surface meshes from measured data is a vital stage in digital shape processing. We present a new approach to this problem that deforms a template surface to fit a given point cloud. Our method takes a template mesh and a point cloud as input, the latter typically shows missing parts and measurement noise. The deformation process is initially guided by user specified correspondences between template and data, then during iterative fitting new correspondences are established. This approach is based on a Laplacian setting for the template without need of any additional meshing of the data or cross-parameterization. The reconstructed surface fits to the point cloud while it inherits shape properties and topology of the template. We demonstrate the effectiveness of the approach for several point data sets from different sources.
High NIHSS Values Predict Impairment of Cardiovascular Autonomic Control (2011)

Increasing stroke severity was associated with progressive loss of overall autonomic modulation, decline in parasympathetic tone, and baroreflex sensitivity, as well as progressive shift toward sympathetic dominance. All autonomic changes put patients with more severe stroke at increasing risk of cardiovascular complications and poor outcome. NIHSS scores are suited to predict risk of autonomic dysregulation and can be used as premonitory signs of autonomic failure.
Getting more from pushing less: Negative specific heat and conductivity in nonequilibrium steady states (2002)

For students familiar with equilibrium statistical mechanics, the notion of a positive specific heat, being intimately related to the idea of stability, is both intuitively reasonable and mathematically provable. However, for systems in nonequilibrium stationary states, coupled to more than one energy reservoir, a negative specific heat is entirely possible. We present a minimal system that displays this phenomenon. For a system in contact with two thermal baths at different temperatures, the (internal) energy may increase when a thermostat is turned down. In another context, a similar phenomenon is negative conductivity, where a current may increase by decreasing the drive (for example, an external electric field). The counter-intuitive behavior in both processes may be described as getting more from pushing less. The crucial ingredients for this phenomenon and the elements needed for a minimal system are also presented.
Physical and monolayer film properties of potential fatty ester biolubricants (2014)

The desire to replace petroleum‐based lubricants with alternatives that are environmentally friendly and made from sustainable sources has encouraged the development of biolubricants based on vegetable oils. To be good lubricants, the materials should have low melting points, appropriate viscosity and oxidative stability. In this paper, we report the melting point and viscosity of oleate esters of ethylene glycol, 1,2‐propanediol, 2,3‐butanediol, and pentaerythritol as well as the decanoate esters of 2,3‐butanediol and the 12‐methyltetradecanoate esters of 1,2‐propanediol. Polyol esters that have a free hydroxy group had lower melting points than the completely esterified polyols, but the completely esterified polyol esters exhibited less change in viscosity with temperature than those having a free hydroxy group. 2, 3‐Butanediol monooleate, which melted at −48.6°C shows promise as a biolubricant, but its viscosity index was estimated to be 100. Pentaerythritol oleate esters, with melting points below −10°C and viscosity indices in the range of 170–197, may be suitable candidates as biolubricants. The behavior of esters spread as a monomolecular film at air/water interface may provide insight into the way they behave when spread on metal or polar surfaces, so the pressure‐area isotherms of 2,3‐butanediol monoleate and selected esters are also reported. Practical applications: The structure and function relationships demonstrated can be used to synthesize biolubricants with desirable physical and performance properties. This figure shows the melting and viscosity properties of various types of synthesized biolubricants. Abbreviations: BDMO, 2,3‐butanediol monooleate; BDM10, 2,3‐butanediol monodecanoate; PGMO, 1,2‐propanediol monooleate; PET, pentaerythritol; R‐Ac, a group of acetylated ricinoleates; BuR, butyl ricinoleate; IsR, isopropyl ricinoleate; BuO, butyl oleate; IsO, isopropyl oleate; MeR‐11u, methyl 12‐undec‐10‐enylricinoleate.
Integrated on‐chip derivatization and electrophoresis for the rapid analysis of biogenic amines (2004)

We demonstrate the monolithic integration of a chemical reactor with a capillary electrophoresis device for the rapid and sensitive analysis of biogenic amines. Fluorescein isothiocyanate (FITC) is widely employed for the analysis of amino-group containing analytes. However, the slow reaction kinetics hinders the use of this dye for on-chip labeling applications. Other alternatives are available such as o-phthaldehyde (OPA), however, the inferior photophysical properties and the UV lambdamax present difficulties when using common excitation sources leading to a disparity in sensitivity. Consequently, we present for the first time the use of dichlorotriazine fluorescein (DTAF) as a superior in situ derivatizing agent for biogenic amines in microfluidic devices. The developed microdevice employs both hydrodynamic and electroosmotic flow, facilitating the creation of a polymeric microchip to perform both precolumn derivatization and electrophoretic analysis. The favorable photophysical properties of the DTAF and its fast reaction kinetics provide detection limits down to 1 nM and total analysis times (including on-chip mixing and reaction) of <60 s. The detection limits are two orders of magnitude lower than current limits obtained with both FITC and OPA. The optimized microdevice is also employed to probe biogenic amines in real samples.
The AHK4 Gene Involved in the Cytokinin-Signaling Pathway as a Direct Receptor Molecule in Arabidopsis thaliana (2001)

We previously identified a set of structurally related genes, AHK2, 3 and 4, each encoding a sensor histidine kinase in Arabidopsis thaliana. To determine the relevant biological functions, we identified a loss-of-function mutation of the AHK4 gene. The mutant exhibited the cytokinin-resistant phenotype not only in inhibition of root growth by cytokinin but also in greening and shoot induction of calli. Moreover, AHK4 expressed in budding yeast showed histidine kinase activity in a manner dependent on the presence of cytokinin. These results strongly suggested that AHK4 is involved in the cytokinin-signaling pathway, as a direct receptor molecule, in Arabidopsis.
Inorganic cation transport and the effects on C4 dicarboxylate transport in Bacillus subtilis (1981)

The complex interrelationships between the transport of inorganic cations and C4 dicarboxylate were examined using mutants defective in potassium transport and retention, divalent cation transport, or phosphate transport. The potassium transport system, studied using 86Rb+ as a K+ analogue, kinetically appeared as a single system (Km 200 microM for Rb+, Ki 50 microM for K+), the activity of which was only slightly reduced in K+ retention mutants. Divalent cation transport, studied using 54Mn2+, 60Co2+, and 45Ca2+, was more complex being represented by at least two systems, one with a high affinity for Mn2+ (Km 2.5 microM) and a more general one of low affinity (Km 1.3-10 mM) for Mg2+, Mn2+, Ca/2+, and Co2+. Divalent cation transport was repressed by Mg2+, derepressed in K+ retention mutants, and defective in Co2+-resistant mutants. Phosphate was required for both divalent cation and succinate transport, and phosphate transport mutants (arsenate resistant) were found to be defective in both divalent cation and succinate transport. Divalent cations, especially Mg2+ and Co2+, decreased Km for succinate transport approximately 20-fold over that achieved with K+; neither cation was required stoichiometrically for succinate transport. The loss of divalent cation transport in cobalt-resistant mutants has been correlated with the loss of a 55,000 molecular weight membrane protein. Similarly, the loss of phosphate transport in arsenate-resistant mutants has been correlated with the loss of a 35,000 molecular weight membrane component.
Metastasis-specific gene expression in autochthonous and allograft mouse mammary tumor models: stratification and identification of targetable signatures (2019)

Abstract Breast cancer is a leading cause of cancer-related death of women in the U.S., which is ultimately due to metastasis rather than primary tumor burden. Therefore, increased understanding of metastasis to develop novel therapies is critical in reducing breast cancer-related mortality. Indeed, a major hurdle in advancing metastasis-targeted intervention is the genotypic and phenotypic heterogeneity that exists between primary and secondary lesions. To identify targetable metastasis-specific gene expression profiles we performed RNA sequencing of breast cancer metastasis mouse models. We analyzed metastases from models of various oncogenic drivers and routes, including orthotopic injection, tail vein injection, intracardiac injection, and genetically engineered mouse models (GEMMs). Herein, we analyzed samples from 176 mice and tissue culture samples, resulting in 338 samples total. Using these data, we contrasted the different breast cancer metastasis models, and also identified common, targetable metastasis specific gene expression signatures. Principal component analysis revealed that mouse model (Allograft v. GEMM) rather than tissue source (PT v metastatic nodule) shaped the transcriptomes of our samples. Allograft models exhibited more mesenchymal-like gene expression than GEMM models, and primary culturing of GEMM-derived metastatic tissue induced more mesenchymal-like gene expression. Furthermore, metastasis-specific gene expression differed between tail vein and orthotopic injection models of the same cell line, the degree of which was cell line dependent. Finally, we examined metastasis-specific gene expression common to models of spontaneous metastasis (orthotopic injection and GEMMs). Pathway analysis identified upregulation of the sildenafil response, and nicotine degradation pathways. The influence of these pathways on metastatic spread was assessed by treatment of allograft models with clinically relevant dosing of sildenafil or nicotine. Sildenafil significantly reduced pulmonary metastasis while nicotine administration significantly increased metastasis, and neither regimen altered primary tumor mass. Taken together our data reveals critical differences between pre-clinical models of metastatic breast cancer. Additionally, this strategy has identified clinically targetable metastasis-specific pathways integral to metastatic spread.
Supplier Selection and Order Quantity Allocation: A Comprehensive Model (1999)

SUMMARY In today's competitive environment, it is extremely difficult to successfully produce high quality, low cost products without considering a satisfactory set of suppliers. A useful approach to ensure the reliability of a manufacturer's supply stream is to follow a multiple sourcing policy. Mathematical programming techniques lend themselves nicely by providing optimal solutions to several instances of the problem. However, a recent review of supply selection methods (Weber et al. 1991) identified very few articles that have proposed mathematical programming techniques to analyze supplier selection decisions. Given the economic importance and inherent complexity associated with the supplier selection problem, this article proposes a mixed integer programming approach to solve the supplier selection program. The modelSUPPSEL (Supplier Selection) simultaneously decides the set of suppliers and order quantity allocations among them.
Designing of the mucoadhesive intravaginal spermicidal films (2010)

A mucoadhesive drug delivery system for local delivery of metronidazole through vaginal route was formulated. Films were prepared by solvent evaporation method using various compositions of Carbopol, hydroxypropylmethylcellulose, chitosan, Polyox and propylene glycol. The films were evaluated for their weight, thickness, surface pH, folding endurance, mechanical, drug content uniformity, in vitro drug release, swelling, gelling and mucoadhesion property. All the films possess satisfactory film characteristics. Films made of Polyox found to possess acceptable, physicochemical, mechanical, gelling and mucoadhesion property for delivery of metronidazole.
A Systematic Examination of Colour Development in Synthetic Ultramarine According to Historical Methods (2013)

A number of historical texts are investigated to ascertain the optimum conditions for the preparation of synthetic ultramarine, using preparative methods that would have been available to alchemists and colour chemists of the nineteenth century. The effect of varying the proportion of sulphur in the starting material on the colour of the final product is investigated. The optimum preparation involves heating a homogenised, pelletised mixture of kaolin (100 parts), sodium carbonate (100 parts), bitumen emulsion (or any 'sticky' carbon source) (12 parts) and sulphur (60 parts) at 750°C for ca. 4 hours. At this stage the ingress of air should be limited. The sample is allowed to cool in the furnace to 500°C, the ingress of air is permitted and additional sulphur (30 parts) is introduced before a second calcination step is undertaken at 500°C for two hours. The products obtained from the optimum synthesis have CIE ranges of x = 0.2945-0.3125, y = 0.2219-0.2617, Y = 0.4257-0.4836, L* = 3.8455-4.3682, a* = 4.2763-7.6943, b* = -7.6772-(-)3.3033, L = 3.8455-4.3682, C = 5.3964-10.8693, h = 315.0636-322.2562. The values are calculated using UV/visible near infrared spectra using Lazurite [1], under D65 illumination, and the 1931 2° observer.
HSP27 - a novel target for non-small cell lung cancer affecting tumor growth and motility. (2007)

1343 Purpose: To determine the role of HSP27 in non-small cell lung cancer (NSCLC) in tumor samples (expression), and in in-vitro and in-vivo models (overexpression/ suppression). Methods: Tumor tissue microarrays (TMA) were stained for HSP27 and Phospho-HSP27 (IHC) and results correlated with outcome. Expression in metastases was compared with the respective matched primary tumors. HSP27 was overexpressed using lentivirus transfected A549 cells and compared with control sequence transfected A549. Cells were studied a) in-vivo for tumor growth, b) in-vitro for motility by time lapse microscopy. HSP27 was suppressed with specific siRNA (in-vitro) and HSP27 antisense (OGX-427; in-vitro and in-vivo). Normal human bronchial epithelial cells (NHBE) were used as controls (in-vitro). Cell cycle analysis was performed. Wortmannin and LY290042 were used to inhibit PI3K. Results: HSP27/ Phospo-HSP27 were overexpressed in 65%/ 61% of tumor tissues. HSP27 expression was significantly higher in matched metastases in comparison to primary tumors (p Conclusions: HSP27 is a promising novel target in NSCLC with a role in tumor growth and motility. HSP27 induced cell motility is PI3K dependent. Increased expression in metastases suggests a role of HSP27 in the metastatic process in patients. HSP27 inhibition is feasible both in-vitro and in-vivo and leads to a marked decreased in tumor growth, induction of apoptosis, and abrogation of cell motility/ membrane ruffling. OGX-427 (HSP27 antisense) is promising for further studies and clinical development in NSCLC.