gebhart/patrepeval huggingface dataset:
Abstract 1730: Up-regulation of C/EBPα inhibits suppressive activity of myeloid cells and potentiates antitumor response in mice and cancer patients (2021)

Abstract Tumor associated macrophages (TAM) and myeloid-derived suppressor cells (MDSC) are widely implicated in the suppression of immune responses in cancer and are associated with negative clinical outcomes. We report that in mouse tumor models, therapeutic up-regulation of the transcriptional factor C/EBPα with small activating RNA (MTL-CEBPA) blocks the suppressive activity of monocytic (M) MDSC and TAM without affecting polymorphonuclear (PMN) MDSC. MTL-CEBPA treatment demonstrated antitumor activity that was dependent on T cells. Combination of MTL-CEBPA and anti-PD1 antibody or with PMN-MDSC targeted therapy resulted in marked antitumor effect. A phase I trial was conducted in 36 patients with advanced hepatocellular carcinoma (HCC). Marked decrease in M-MDSC and the expression of genes and proteins involved in immune suppressive activity of these cells were observed. Combined treatment with MTL-CEBPA and sorafenib resulted in a 27% objective radiological response and three complete responses in patients with virally associated HCC. Tissue biopsies from these patients demonstrated decrease in M2 polarized macrophages within the tumors. Thus, therapeutic up-regulation of C/EBPα inhibited suppressive myeloid cells that resulted in potent antitumor effect in mice and with encouraging clinical response in cancer patients. We are currently recruiting to a multi-centre study of MTL-CEBPA in combination with a PD-1 inhibitor (pembrolizumab) in adult patients with advanced solid tumors (TIMEPOINT - ClinicalTrials.gov Identifier: NCT04105335). Citation Format: Ayumi Hashimoto, Debashis Sarker, Vikash Reebye, Sheba Jarvis, Mikael H. Sodergren, Andrew Kossenkov, Nina Raulf, Jenni Vasara, Pinelopi Andrikakou, Tim Meyer, Kai-Wen Huang, Ruth Plummer, Cheng Ean Chee, Duncan Spalding, Madhava Pai, David J. Pinato, Rohini Sharma, Bristi Basu, Daniel Palmer, Yuk-Ting Ma, Robert Habib, Anna Martirosyan, Naouel Elasri, Adeline Reynaud, John Rossi, Mark Cobbold, Nagy Habib, Dmitry Gabrilovich. Up-regulation of C/EBPα inhibits suppressive activity of myeloid cells and potentiates antitumor response in mice and cancer patients [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2021; 2021 Apr 10-15 and May 17-21. Philadelphia (PA): AACR; Cancer Res 2021;81(13_Suppl):Abstract nr 1730.
Organic Photovoltaics Interdigitated on the Molecular Scale (2006)

Phosphonated porphyrin frameworks that are porous to an electron-accepting perylenediimide are systematically interdigitated with a phosphonated form of the diimide to form bulk heterojunctions. When employed in photovoltaics, these molecularly interlaced heterojunctions provide large junction areas while retaining the phase connectivity of traditional bilayer heterojunctions. Zirconium phosphonate linkages facilitate layer-by-layer chromophore assembly from solution under ambient conditions. The dependence of photovoltaic performance on heterojunction architecture is investigated.
The role of charge on the diffusion of solutes and nanoparticles (silicon nanocrystals, nTiO2, nAu) in a biofilm (2013)

Environmental context The mobility and bioavailability of both contaminants and nutrients in the environment depends, to a large extent, on their diffusion. Because the majority of microorganisms in the environment are embedded in biofilms, it is essential to quantify diffusion in biofilms in order to evaluate the risk of emerging contaminants, including nanomaterials and charged solutes. This study quantifies diffusion, in a model environmental biofilm, for a number of model contaminants of variable size and charge. Abstract The effect of solute and biofilm charge on self-diffusion (Brownian motion) in biofilms is examined. Diffusion coefficients (D) of several model (fluorescent) solutes (rhodamine B; tetramethylrhodamine, methyl ester; Oregon Green 488 carboxylic acid, succinimidyl ester and Oregon Green 488 carboxylic acid) and nanoparticles (functionalised silicon, gold and titanium) were determined using fluorescence correlation spectroscopy (FCS). Somewhat surprisingly, little effect due to charge was observed on the diffusion measurements in the biofilms. Furthermore, the ratio of the diffusion coefficient in the biofilm with respect to that in water (Db/Dw) remained virtually constant across a wide range of ionic strengths (0.1–100 mM) for both negatively and positively charged probes. In contrast, the self-diffusion coefficients of nanoparticles with sizes &amp;gt;10 nm greatly decreased in the biofilms with respect to those in water. Furthermore, much larger nanoparticles (&amp;gt;66 nm) appeared to be completely excluded from the biofilms. The results indicated that for many oligotrophic biofilms in the environment, the diffusion of solutes and nanoparticles will be primarily controlled by obstruction rather than electrostatic interactions. The results also imply that most nanomaterials will become significantly less mobile and less bioavailable (to non-planktonic organisms) as they increase in size beyond ~10 nm.
In-situ observation of moisture-induced degradation of perovskite solar cells using laser-beam induced current (2016)

Solar cells based on organic-inorganic metal halide perovskites have been the focus of photovoltaic research over the past few years due to high power conversion efficiencies up to 22.1% and inexpensive manufacturing costs. However, commercialization of perovskite PV technology is hindered by lack of long-term stability. To elucidate the degradation mechanisms in the state of the art perovskite solar cells, we used laser beam induced current (LBIC) mapping to spatially resolve the device degradation during aging under high humidity conditions. We confirm that perovskites are prone to decomposition in the presence of water. By varying the absorber and hole-transport materials of the devices, we are able to compare performance and identify the water ingress and degradation mechanisms. These results provide insight into the design of materials and device architectures that may improve operational stability of perovskite solar cells.
Terahertz reflection time domain spectroscopy of branched alkanes (2011)

The temperature dependent spectroscopic properties of 2-methylpentadecane were measured over several path lengths using terahertz reflection time-domain spectroscopy. The variation of the index of refraction and absorption with temperature was consistent with the behavior of the linear chain n-alkanes in previous studies. However, an increased absorption coefficient was observed indicating a larger induced dipole moment compared to its structural isomers, the higher symmetry n-hexadecane and the highly branched alkane 2,2,4,4,6,8,8-heptamethylnonane.
Data from siRNA Lipid Nanoparticle Potently Silences Clusterin and Delays Progression When Combined with Androgen Receptor Cotargeting in Enzalutamide-Resistant Prostate Cancer (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Purpose:&lt;/b&gt; Lipid nanoparticle (LNP) formulations facilitate tumor uptake and intracellular processing through an enhanced permeation and retention effect (EPR), and currently multiple products are undergoing clinical evaluation. Clusterin (CLU) is a cytoprotective chaperone induced by androgen receptor (AR) pathway inhibition to facilitate adaptive survival pathway signaling and treatment resistance. In our study, we investigated the efficacy of siRNA tumor delivery using LNP systems in an enzalutamide-resistant (ENZ-R) castration-resistant prostate cancer (CRPC) model.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Experimental Design:&lt;/b&gt; Gene silencing of a luciferase reporter gene in the PC-3M-luc stable cell line was first assessed in subcutaneous and metastatic PC-3 xenograft tumors. Upon validation, the effect of LNP siRNA targeting CLU in combination with AR antisense oligonucleotides (ASO) was assessed in ENZ-R CRPC LNCaP &lt;i&gt;in vitro&lt;/i&gt; and &lt;i&gt;in vivo&lt;/i&gt; models.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; LNP LUC-siRNA silenced luciferase expression in PC-3M-luc subcutaneous xenograft and metastatic models. LNP CLU-siRNA potently suppressed CLU and AR ASO-induced CLU and AKT and ERK phosphorylation in ENZ-R LNCaP cells &lt;i&gt;in vitro&lt;/i&gt;, more potently inhibiting ENZ-R cell growth rates and increased apoptosis when compared with AR-ASO monotherapy. In subcutaneous ENZ-R LNCaP xenografts, combinatory treatment of LNP CLU-siRNA plus AR-ASO significantly suppressed tumor growth and serum PSA levels compared with LNP LUC-siRNA (control) and AR-ASO.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusions:&lt;/b&gt; LNP siRNA can silence target genes &lt;i&gt;in vivo&lt;/i&gt; and enable inhibition of traditionally non-druggable genes like CLU and other promising cotargeting approaches in ENZ-R CRPC therapeutics. &lt;i&gt;Clin Cancer Res; 21(21); 4845–55. ©2015 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
IL-4 induces LFA-1 and LFA-3 expression on Burkitt's lymphoma cell lines. Requirement of additional activation by phorbol myristate acetate for induction of homotypic cell adhesions. (1989)

LFA-1 and LFA-3 expression is absent or low on Burkitt's lymphoma cell lines and low on the EBV-transformed B cell line UD61. Incubation of cells of BL2 and of UD61 with various concentrations of IL-4 resulted in induction of LFA-1 and LFA-3 expression in a dose dependent fashion. This effect was already observed after 16 h of incubation whereas maximal expression was obtained after 72 h. Induction of LFA-1 and LFA-3 expression seemed to be specific for IL-4, because IL-1, IL-2, IL-3, IFN-alpha, IFN-gamma and a low m.w. B cell growth factor were ineffective. LFA-1 and LFA-3 induction by IL-4 was blocked specifically by an anti-IL-4 antiserum. Induction of LFA-1 expression by IL-4 was furthermore confirmed at the specific LFA-1 beta-chain mRNA level. IL-4 was unable to induce LFA-1 expression on EBV-transformed lymphoblastoid cell lines of two LFA-1-deficient patients. BL2 grows as single cells, but induction of LFA-1 and LFA-3 expression by IL-4 was insufficient to induce homotypic cell adhesions and required PMA as a second signal. PMA alone did not induce LFA-1 antigen expression and was unable to induce adhesions between BL2 cells in the absence of IL-4 in 22 h assays. Addition of PMA to BL2 cells that expressed LFA-1 Ag upon incubation with IL-4 resulted in aggregate formation within 30 min. Adhesions between BL2 cells induced by IL-4 in combination with PMA were blocked by anti-LFA-1 beta or anti-LFA-1 alpha-chains mAb. In addition, these mAbs dispersed preformed aggregates of BL2 cells. Our results indicate that IL-4 can induce the adhesion molecules LFA-1 and LFA-3 on B cell lines, but that an additional activation signal provided by PMA was required for the induction of homotypic cell adhesions.
Testing and Genotyping of High-Risk Human Papillomavirus by the cobas HPV Test and the Hybrid Capture 2 High-Risk HPV DNA Test Using Cervical and Vaginal Samples (2014)

The accurate detection and typing of high-risk human papillomavirus (HPV) are critical for cervical cancer screening. The Hybrid Capture 2 (hc2) and cobas HPV tests showed high agreement for cervical samples (94.4%, κ=0.72, n=693) and moderate agreement for vaginal samples (κ=0.62, n=108). The HPV16 and HPV18 results were highly consistent between the cobas and Linear Array tests (κ≥0.96, n=197). Three hc2-negative vaginal samples were repeatedly invalid by the cobas test due to β-globin control failures, highlighting amplification control benefits. No cross-contamination was detected in a challenge experiment.
A Generic Fault Countermeasure Providing Data and Program Flow Integrity (2008)

So far many software countermeasures against fault attacks have been proposed. However, most of them are tailored to a specific cryptographic algorithm or focus on securing the processed data only. In this work we present a generic and elegant approach by using a highly fault secure algebraic structure. This structure is compatible to finite fields and rings and preserves its error detection property throughout addition and multiplication. Additionally, we introduce a method to generate a fingerprint of the instruction sequence. Thus, it is possible to check the result for data corruption as well as for modifications in the program flow. This is even possible if the order of the instructions is randomized. Furthermore, the properties of the countermeasure allow the deployment of error detection as well as error diffusion. We point out that the overhead for the calculations and for the error checking within this structure is reasonable and that the transformations are efficient. In addition we discuss how our approach increases the security in various kinds of fault scenarios.
PAM4 signaling considerations for high-speed serial links (2016)

The paper discusses current challenges and advantages of multi-level signaling for high-speed serial links, showing the differences and similarities in link-path analysis between binary and multi-level signaling. Comparison of two signaling methodologies is given from the general theory viewpoint, as well as on the basis of various tests regarding crosstalk, jitter, equalizations and different channel characteristics, such as material, impedance and overall manufacturing design sensitivity.
PAPR Constrained Power Allocation for Multicarrier Transmission in Multiuser SIMO Communications (2015)

Peak-to-average power ratio (PAPR) constrained power allocation for multicarrier transmission in multiuser single-input multiple-output (SIMO) communications is considered in this paper. Reducing the PAPR in any transmission system is beneficial because it allows the use of inexpensive energy-efficient power amplifiers. In this paper, we formulate a power allocation problem for single-carrier (SC) frequency division multiple access (FDMA) and orthogonal FDMA (OFDMA) transmission with instantaneous PAPR constraints. Moreover, a statistical approach is considered in which the power variance of the transmitted waveform is controlled. The constraints for the optimization problems are derived as a function of transmit power allocation and two successive convex approximations (SCAs) are derived for each of the constraints based on a change of variables (COV) and geometric programming (GP). In addition, the optimization problem is constrained by a user-specific quality of service (QoS) constraint. Hence, the proposed power allocation strategy jointly takes into account the channel quality and the PAPR characteristics of the power amplifier. The numerical results show that the proposed power allocation strategy can significantly improve the transmission efficiency of power-limited users. Therefore, it is especially beneficial for improving the performance for cell edge users.
Abstract 1053: Redirecting abiraterone metabolism to biochemically fine tune prostate cancer therapy (2016)

Abstract Prostate cancer is the most diagnosed cancer in men and Abiraterone is used for castration resistant prostate cancer therapy by suppressing androgen production. In patients, abiraterone is converted to D4A, a novel metabolite with more potent anti-tumor activity and structural similarities to endogenous steroidal 5α-reductase substrates, such as testosterone. Here, we show that D4A is further metabolized by the related steroidogenic enzymes to at least 3 5α-reduced and 3 5β-reduced metabolites. The initial 5α-reduced metabolite, 3-keto-5α-abi, is more abundant than D4A in patients taking abiraterone, and is an androgen receptor (AR) agonist, which promotes prostate cancer progression. In a clinical trial with patients taking abiraterone alone, followed by abiraterone plus dutasteride (a 5α-reductase inhibitor), 3-keto-5α-abi and downstream metabolites are depleted by dutasteride, while D4A concentrations rise, effectively blocking production of a tumor promoting metabolite and permitting D4A accumulation. Our findings suggest a previously unappreciated and biochemically specific method of clinically fine tuning abiraterone metabolism to optimize therapy. Citation Format: zhenfei li, Mohammad Alyamani, Nima Sharifi. Redirecting abiraterone metabolism to biochemically fine tune prostate cancer therapy. [abstract]. In: Proceedings of the 107th Annual Meeting of the American Association for Cancer Research; 2016 Apr 16-20; New Orleans, LA. Philadelphia (PA): AACR; Cancer Res 2016;76(14 Suppl):Abstract nr 1053.
ChemProt-3.0: a global chemical biology diseases mapping (2016)

ChemProt is a publicly available compilation of chemical-protein-disease annotation resources that enables the study of systems pharmacology for a small molecule across multiple layers of complexity from molecular to clinical levels. In this third version, ChemProt has been updated to more than 1.7 million compounds with 7.8 million bioactivity measurements for 19,504 proteins. Here, we report the implementation of global pharmacological heatmap, supporting a user-friendly navigation of chemogenomics space. This facilitates the visualization and selection of chemicals that share similar structural properties. In addition, the user has the possibility to search by compound, target, pathway, disease and clinical effect. Genetic variations associated to target proteins were integrated, making it possible to plan pharmacogenetic studies and to suggest human response variability to drug. Finally, Quantitative Structure-Activity Relationship models for 850 proteins having sufficient data were implemented, enabling secondary pharmacological profiling predictions from molecular structure. Database URL: http://potentia.cbs.dtu.dk/ChemProt/.
Enhanced Symbol-Level Interference Cancellation for PDCCH of 3GPP LTE/LTE-A (2014)

In cellular communication systems, such as 3GPP LTE (3rd Generation Partnership Project Long Term Evolution)/LTE-Advanced, mutual co-channel interference from neighboring cells may significantly jeopardize the performance of all downlink physical channels, especially for receivers located at the cell-edge. A conventional approach to cope with those interference issues relies on coordination of neighboring cell transmissions. However, the design of Physical Downlink Control Channel (PDCCH) of LTE/LTE-A is not flexible enough to fully support transmitter-based inter-cell interference coordination (ICIC). Therefore, a more general receiver-based approach to suppress co-channel interference on PDCCH is being considered for LTE/LTE A. This paper proposes an enhanced iterative symbol-level inter-cell interference cancellation (SLIC) receiver designed for PDCCH. Compared to conventional SLIC, the proposed method provides more robust PDCCH link-level performance in scenarios with amplitude ambiguity of the serving and interfering signals which can occur in LTE/LTE-A systems due to the transparent, i.e., without any network signaling assistance to the user, power control on PDCCH. From simulation of PDCCH in LTE/LTE-A systems, we show that the proposed SLIC receiver provides substantial performance gains over the conventional SLIC receiver under typical PDCCH interference conditions.
Promotional Video Editing Techniques Utilizing Color (2014)

In order to respond to the flow of the many changes that changes every day in the digital era of constantly evolving, it will evolve; new research for the content production is required. In this research and it is an object of the invention is to provide a technique of public relations video editing utilizing the science of color for video content creation creative. This may be in terms of corporations, to obtain the effect marketing specifically effective. The research method, and is intended to explain how to implement based on the expected effect obtained by fusion technique stop motion which is the color extracted with monochrome image, the Experimental video image produced by the image it. Describing the theoretical background for the color marketing Prior to this, public relations, and theoretical understanding of marketing. Use the Adobe Premiere and Adobe Photoshop, implementation method was to allow the process simple and effective from the standpoint of the user. Then, so as to propose a new video technique with the help of color marketing and the result of the analysis is utilized to know who the effective activation and development of social video marketing in the future, and tries to present a technique for the new approach be.
Routine Gadolinium Use for MRI Follow-Up of Multiple Sclerosis: Point—The Role of Leptomeningeal Enhancement (2021)

This article does not include an abstract.
Role of Bone Marrow Stromal Cells in Irradiation Leukemogenesis (1996)

The role of bone marrow stromal cells of the hematopoietic microenvironment in ionizing-irradiation leukemogenesis is a focus of current investigation. Evidence from recent in vitro and in vivo experiments suggests that damage by slowly proliferating cells of the hematopoietic microenvironment contributes to the sustained survival of irradiation-damaged hematopoietic progenitor cells/stem cells and can contribute to the selection and proliferation of a malignant clone. The molecular mechanism of the interaction of irradiated stromal cells with attached hematopoietic cells has been difficult to evaluate. Irradiated bone marrow stromal cell line D2XRII demonstrated altered patterns of fibronectin splicing and increased expression of several transcriptional splice variants of macrophage-colony-stimulating factor. Differential display has revealed specific radiation-induced gene transcripts which persist after irradiation of stromal cells in vitro or in vivo. In recent experiments, we demonstrated that irradiation of mouse bone marrow stromal cell line D2XRII induces release of significant levels of transforming growth factor (TGF)-beta into the tissue culture medium despite the lack of a detectable increase in TGF-beta mRNA. Since TGF-beta is known to induce reactive oxygen species (ROS), we tested how a target hematopoietic cell line, responsive to ROS by up-regulation of a transgene for an antioxidant protein, responded to cocultivation with irradiated bone marrow stromal cells. Bone marrow stromal cell line GPIa/GBL, derived from long-term bone marrow culture of a C57BL/6J-GPIa mouse, was irradiated in vitro and then cocultured with the interleukin (IL)-3-dependent hematopoietic progenitor cell line 32D cl 3, or with each of several subclonal lines expressing a transgene for human manganese superoxide dismutase (MnSOD). Cobblestone island formation, as a measure of adherence and proliferation by 32D-MnSOD clones in the presence or absence of IL-3, was increased with irradiated compared to control GPIa cells. Furthermore, using a fluorescent dye which detects ROS, hematopoietic cells cocultivated with irradiated stromal cells demonstrated higher levels of intracellular ROS than cells cocultivated and forming cobblestone islands on nonirradiated stromal cells. Since ROS are known to induce mutations in hot spots in the p53 gene, it appears worthwhile to investigate a potential mechanism for irradiated stromal cell induction of hematopoietic stem cell transformation through ROS-induced mutations. The present cell culture and molecular biology techniques provide new methods to analyze the effects of irradiated stromal cells on closely attached hematopoietic stem cells during irradiation leukemogenesis.