gebhart/patrepeval huggingface dataset:
The cell‐surface proteome of cultured adipose stromal cells (2015)

In this technical note we describe a method to evaluate the cell surface proteome of human primary cell cultures and cell lines. The method utilizes the BD Biosciences lyoplate, a system covering 242 surface proteins, glycoproteins, and glycosphingolipids plus relevant isotype controls, automated plate-based flow cytometry, conventional file-level analysis and unsupervised K-means clustering of markers on the basis of percent of positive events and mean fluorescence intensity of positive and total clean events. As an example, we determined the cell surface proteome of cultured adipose stromal cells (ASC) derived from 5 independent clinical isolates. Between-sample agreement of very strongly expressed (n = 32) and strongly expressed (n =16) markers was excellent, constituting a reliable profile for ASC identification and determination of functional properties. Known mesenchymal markers (CD29, CD44, CD73, CD90, CD105) were among the identified strongly expressed determinants. Among other strongly expressed markers are several that are potentially immunomodulatory including three proteins that protect from complement mediated effects (CD46, CD55, and CD59), two that regulate apoptosis (CD77 and CD95) and several with ectoenzymatic (CD10, CD26, CD13, CD73, and CD143) or receptor tyrosine kinase (CD140b (PDGFR), CD340 (Her-2), EGFR) activity, suggesting mechanisms for the anti-inflammatory and tissue remodeling properties of ASC. Because variables are standardized for K-means clustering, results generated using this methodology should be comparable between instrumentation platforms. It is widely generalizable to human primary explant cultures and cells lines and will prove useful to determine how cell passage, culture interventions, and gene expression and silencing affect the cell-surface proteome.
Low Sample and Communication Complexities in Decentralized Learning: A Triple Hybrid Approach (2021)

Network-consensus-based decentralized learning optimization algorithms have attracted a significant amount of attention in recent years due to their rapidly growing applications. However, most of the existing decentralized learning algorithms could not achieve low sample and communication complexities simultaneously - two important metrics in evaluating the trade-off between computation and communication costs of decentralized learning. To overcome these limitations, in this paper, we propose a triple hybrid decentralized stochastic gradient descent (TH-DSGD) algorithm for efficiently solving non-convex network-consensus optimization problems for decentralized learning. We show that to reach an ϵ <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> -stationary solution, the total sample complexity of TH-DSGD is O(ϵ <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-3</sup> ) and the communication complexity is O(ϵ <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-3</sup> ), both of which are independent of dataset sizes and significantly improve the sample and communication complexities of the existing works. We conduct extensive experiments with a variety of learning models to verify our theoretical findings. We also show that our TH-DSGD algorithm is stable as the network topology gets sparse and enjoys better convergence in the large-system regime.
Process Design and Economics for the Conversion of Lignocellulosic Biomass to Hydrocarbons via Indirect Liquefaction. Thermochemical Research Pathway to High-Octane Gasoline Blendstock Through Methanol/Dimethyl Ether Intermediates (2015)

This report was developed as part of the U.S. Department of Energy’s Bioenergy Technologies Office’s (BETO’s) efforts to enable the development of technologies for the production of infrastructure-compatible, cost-competitive liquid hydrocarbon fuels from lignocellulosic biomass feedstocks. The research funded by BETO is designed to advance the state of technology of biomass feedstock supply and logistics, conversion, and overall system sustainability. It is expected that these research improvements will be made within the 2022 timeframe. As part of their involvement in this research and development effort, the National Renewable Energy Laboratory and the Pacific Northwest National Laboratory investigate the economics of conversion pathways through the development of conceptual biorefinery process models and techno-economic analysis models. This report describes in detail one potential conversion process for the production of high-octane gasoline blendstock via indirect liquefaction of biomass. The processing steps of this pathway include the conversion of biomass to synthesis gas or syngas via indirect gasification, gas cleanup, catalytic conversion of syngas to methanol intermediate, methanol dehydration to dimethyl ether (DME), and catalytic conversion of DME to high-octane, gasoline-range hydrocarbon blendstock product. The conversion process configuration leverages technologies previously advanced by research funded by BETO and demonstrated in 2012 with the production of mixed alcohols from biomass. Biomass-derived syngas cleanup via reforming of tars and other hydrocarbons is one of the key technology advancements realized as part of this prior research and 2012 demonstrations. The process described in this report evaluates a new technology area for the downstream utilization of clean biomass-derived syngas for the production of high-octane hydrocarbon products through methanol and DME intermediates. In this process, methanol undergoes dehydration to DME, which is subsequently converted via homologation reactions to high-octane, gasoline-range hydrocarbon products.
Russia and the Transforming European Security (2019)

Abstract: Since the end of the Cold War, Russia has retained world’s special attention as a key vector for both global and European security. While the energetic link is undeniable the backbone for EU-Russia relations, the sanctions game prove to be a stone corner for redefining not only the course of bilateral relations but the future of European security. In view of the new realities shaped by this rough geo-political game, our article aims to bring forward some essential issues for the new coordinates of European security, while highlighting both the challenges and opportunities brought by the current international framework. Our assumptions are based not only on core strategic European documents, but also on the latest transformations induced by Russian foreign strategy and by the international sanctions imposition. Also, it is our opinion that while the bilateral dimension of EU - Russia relations is important in itself, special attention ought to be paid to more general matters concerning the current global situation and issues of the emerging new world order that took place during the last G-20 summit. The heightened interest in those topics is understandable, because EU - Russia relations are not developing in a vacuum, and the dynamics and prospects of these relations are largely contingent on the global political and economic situation as a whole. Perhaps the most relevant conclusion for the future of Russia and EU relations has been highlighted by French President Emanuel Macron who concluded that Russia is considered a deeply European country, while he personally believe in a Europe, which extends from Lisbon to Vladivostok. It is on this positive note that we can affirm that a new architecture of security and trust between Russia and the European Union is needed, while undoubtedly both France and Germany, as joint leaders of Europe, will have to play an important role in this process.
Design methodology for 112Gb/s PAM4 Wireline ADC-Based Receivers (2021)

This paper presents a design methodology for 112Gb/s PAM4 ADC-based receivers. This methodology is based on channel equalization to validate the specifications. A complete high-speed serial link in MATLAB Simulink was simulated. The receiver is capable of equalize input data with channel losses close and up to 30dB at Nyquist Frequency. A combination of CTLE, long FFE taps with one-tap DFE presents as the best solution to cancel ISI. The resulting Bit Error Rate (BER) is within the specified range of 1 × 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-4</sup> to 1 × 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-5</sup> .
Bond Strength of Soft Liners to Fiber‐Reinforced Denture‐Base Resin (2010)

The choice of appropriate reline material system with FR acrylic resin is important for the soft liner/denture-base polymer bond. Glass FR did not have a decreasing effect on the bond strength, except for Ufi Gel SC.
Visualization of proteins that specifically bind to the repetitive DNA sequences in human spermatozoids (2000)

Conference Abstract| October 01 2000 Visualization of proteins that specifically bind to the repetitive DNA sequences in human spermatozoids A. V. Dolnik; A. V. Dolnik 1Russia, St.-Petersburg, 194064, Institute of Cytology, Tikhoretsky pr.,4 Search for other works by this author on: This Site PubMed Google Scholar D. V. Lukjanov; D. V. Lukjanov 1Russia, St.-Petersburg, 194064, Institute of Cytology, Tikhoretsky pr.,4 Search for other works by this author on: This Site PubMed Google Scholar N. I. Enukashvily; N. I. Enukashvily 1Russia, St.-Petersburg, 194064, Institute of Cytology, Tikhoretsky pr.,4 Search for other works by this author on: This Site PubMed Google Scholar O. I. Podgornaya O. I. Podgornaya 1Russia, St.-Petersburg, 194064, Institute of Cytology, Tikhoretsky pr.,4 Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (2000) 28 (5): A246. https://doi.org/10.1042/bst028a246c Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn MailTo Cite Icon Cite Get Permissions Citation A. V. Dolnik, D. V. Lukjanov, N. I. Enukashvily, O. I. Podgornaya; Visualization of proteins that specifically bind to the repetitive DNA sequences in human spermatozoids. Biochem Soc Trans 1 October 2000; 28 (5): A246. doi: https://doi.org/10.1042/bst028a246c Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 2000 Biochemical Society2000 Article PDF first page preview Close Modal You do not currently have access to this content.
Abstract 171: Targeting the tumor microenvironment: inhibition of carbonic anhydrase 9 impedes brain tumor initiating cell chemoresistance and delays glioblastoma growth in vivo (2017)

Abstract Brain tumor initiating cells (BTICs) are resistant to chemo- and radiotherapy, providing a reservoir for tumor recurrence and a desirable target for glioma treatments. Standard of care for glioblastoma (GBM; grade IV astrocytoma) includes the chemotherapeutic agent temozolomide, which prolongs life expectancy by months and is not curative. Prior studies suggested the efficacy of chemotherapies including temozolomide was increased by reducing expression of carbonic anhydrase 9 (CA9). CA9 is a hypoxia responsive gene elevated in tumors that is important for regulating intracellular pH and contributing to the acidic extracellular microenvironment. After confirming basal and hypoxia-induced expression of CA9 in GBM BTICs, we targeted CA9 activity with the small molecule inhibitor SLC-0111 alone or in combination with temozolomide. In multiple GBM BTIC lines, SLC-0111 reduced cell growth in vitro and showed additional benefit when used concurrently with temozolomide. Importantly, SLC-0111 inhibited the enrichment of BTICs after temozolomide treatment as determined via BTIC marker expression and neurosphere formation capacity. These data suggested the potential of SLC-0111 as a chemosensitizer, which we next evaluated in preclinical studies using a subcutaneous recurrent GBM model. GBMs treated with SLC-0111 in combination with temozolomide significantly regressed and the resulting in vivo growth delay was greater than that of temozolomide or SLC-0111 alone. Together, our data suggest that SLC-0111 can sensitize GBM BTICs to the chemotherapy temozolomide and significantly delay disease progression. Citation Format: Nathaniel H. Boyd, Kiera Walker, Paul C. McDonald, Mark O. Bevensee, Yancey G. Gillespie, Burt Nabors, Shoukat Dedhar, Anita B. Hjelmeland. Targeting the tumor microenvironment: inhibition of carbonic anhydrase 9 impedes brain tumor initiating cell chemoresistance and delays glioblastoma growth in vivo [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2017; 2017 Apr 1-5; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2017;77(13 Suppl):Abstract nr 171. doi:10.1158/1538-7445.AM2017-171
Predicting supercooling of phase change materials in arbitrarily varying conditions (2023)

Phase change materials are promising for thermal energy storage; however, one major bottleneck for their practical implementation is their unclear supercooling behaviors. In this work, we introduce a framework to predict the degree of supercooling for a phase change material subject to arbitrary geometrical and thermal conditions by analyzing the phase change material’s intrinsic nucleation characteristics with a statistical model. The prediction capability of our framework is successfully validated with experiments using magnesium chloride hexahydrate as a phase change material. For a system with a uniform temperature distribution, our framework can predict the average degree of supercooling. For a general case such as phase change materials embedded in a heat sink, the framework can accurately predict the expected time, with less than 8% deviation, for nucleation under given conditions. This work provides important insights in understanding and predicting supercooling behavior, thereby providing guidelines for the optimal design of phase change material-based thermal energy storage applications.
Steroid-Sparing Effects of Anti-IL-5 Monoclonal Antibody (Mepolizumab) Therapy in Patients with HES: A Multicenter, Randomized, Double-Blind, Placebo-Controlled Trial. (2006)

Abstract An international, multicenter, randomized, double-blind, placebo-controlled, parallel-group trial has evaluated the effects of mepolizumab, a humanized anti-interleukin-5 monoclonal antibody, on therapeutic prednisone dose requirements, eosinophil levels, signs and symptoms of disease in patients with hypereosinophilic syndrome (HES). The trial enrolled 85 patients (mean age 48.1 years) with HES (blood eosinophil count &gt;1500/μl with evidence of eosinophil-related organ involvement or dysfunction and no known cause of eosinophilia), who tested negative for the FIP1L1-PDGFRα gene rearrangement and required 20–60 mg/day prednisone monotherapy to maintain blood eosinophils at &lt;1000 cells/μL during a run-in period of ≤6 weeks. Patients were randomized to treatment with intravenous mepolizumab 750 mg (n=43) or saline (placebo; n=42) every 4 weeks for 36 weeks (final infusion at Week 32). The prednisone dose was tapered at weekly intervals following the first infusion according to a predefined algorithm based on blood eosinophil counts and HES clinical activity criteria. A total of 84% of patients in the mepolizumab group vs 43% in the placebo group (P&lt;0.001) achieved the primary endpoint (≤10 mg/day prednisone for ≥8 consecutive weeks within the 36-week treatment period). Time to achievement of the primary endpoint, a post-hoc analysis, was significantly shorter in mepolizumab- vs placebo-treated patients (P=0.002). Significantly higher proportions of patients on mepolizumab achieved pre-defined secondary steroid-sparing and eosinophil endpoints vs placebo (Table). Initial assessments of cutaneous disease (based on pruritus visual analog scales and erythema/edema scores) did not differ between the treatment groups. This study, the largest placebo-controlled trial to be conducted in patients with HES to date, has shown that mepolizumab is more effective than placebo at reducing therapeutic prednisone use and stabilizing eosinophil counts in patients with HES. Importantly, a significantly higher proportion of HES patients treated with mepolizumab than placebo achieved the primary endpoint and required ≤10 mg/day prednisone for at least 8 consecutive weeks. These findings indicate that mepolizumab will be an effective therapy for FIP1L1-PDGFRα negative patients with HES. Primary and secondary endpoints Endpoint Placebo (n=42) Mepolizumab (n=43) P-value (95% CI) Patients on ≤10 mg/day prednisone for ≥8 weeks (primary endpoint), % 43% 84% &lt;0.001 (2.69, 23.78) Patients with eosinophils &lt;600 μL for ≥8 weeks, % 45% 95% &lt;0.001 (4.74, 75.17) Primary endpoint in patients on ≤30 mg/day prednisone at baseline, % 57% (n=30) 87% (n=30) 0.011 (1.39, 17.82) Primary endpoint in patients on &gt;30 mg/day prednisone at baseline, % 8% (n=12) 77% (n=13) &lt;0.001 (3.26, 412.26) Patients achieving ≤7.5 mg/day prednisone during the treatment period, % 50% 86% &lt;0.001 (2.04, 15.00) Mean (±SE) prednisone dose at Week 36 (adjusted), mg/day 21.8±1.92 6.2±1.87 &lt;0.001
Factored MLLR Adaptation (2010)

One of the most popular approaches to parameter adaptation in hidden Markov model (HMM) based systems is the maximum likelihood linear regression (MLLR) technique. In this letter, we extend MLLR to factored MLLR (FMLLR) in which the MLLR parameters depend on a continuous-valued control vector. Since it is practically impossible to estimate the MLLR parameters for each control vector separately, we propose a compact parametric form of the MLLR parameters. In the proposed approach, each MLLR parameter is represented as an inner product between a regression vector and transformed control vector. We present an algorithm to train the FMLLR parameters based on a general framework of the expectation-maximization (EM) algorithm. The proposed approach is applied to adapt the HMM parameters obtained from a database of reading-style speech to singing-style voices while treating the pitches and durations extracted from the musical notes as the control vectors. This enables to efficiently construct a singing voice synthesizer with only a small amount of singing data.
Cytokinins in Pisum Transfer Ribonucleic Acid (1972)

Five cytokinin-active ribonucleosides have been isolated from the transfer RNA of 7-day-old green pea shoots (Pisum sativum L. var. Alaska). Ultraviolet spectroscopy and mass spectrometry have been used to identify 6-(3-methyl-2-butenylamino)-9-beta-d-ribofuranosylpurine, 6-(4-hydroxy-3-methyl-2-butenylamino)-2-methylthio-9-beta- d-ribofuranosylpurine, and 6-(4-hydroxy-3-methyl-2-butenylamino)-9-beta-d-ribofuranosylpurine. The latter was separated into the cis- and trans-isomers by thin layer chromatography. The fifth cytokinin is indicated to be 6-(3-methyl-2-butenylamino)-2-methylthio-9-beta-d -ribofuranosylpurine on the basis of its chromatographic properties.
Non-canonical Wnt Signaling Enhances Differentiation of Human Circulating Progenitor Cells to Cardiomyogenic Cells (2005)

Human endothelial circulating progenitor cells (CPCs) can differentiate to cardiomyogenic cells during co-culture with neonatal rat cardiomyocytes. Wnt proteins induce myogenic specification and cardiac myogenesis. Here, we elucidated the effect of Wnts on differentiation of CPCs to cardiomyogenic cells. CPCs from peripheral blood mononuclear cells were isolated from healthy volunteers and co-cultured with neonatal rat cardiomyocytes. 6-10 days after co-culture, cardiac differentiation was determined by alpha-sarcomeric actinin staining of human lymphocyte antigen-positive cells (fluorescence-activated cell-sorting analysis) and mRNA expression of human myosin heavy chain and atrial natriuretic peptide. Supplementation of co-cultures with Wnt11-conditioned medium significantly enhanced the differentiation of CPCs to cardiomyocytes (1.7+/-0.3-fold), whereas Wnt3A-conditioned medium showed no effect. Cell fusion was not affected by Wnt11-conditioned medium. Because Wnts inhibit glycogen synthase kinase-3beta, we further determined whether the glycogen synthase kinase-3beta inhibitor LiCl also enhanced cardiac differentiation of CPCs. However, LiCl (10 mM) did not affect CPC differentiation. In contrast, Wnt11-conditioned medium time-dependently activated protein kinase C (PKC). Moreover, the PKC inhibitors bisindolylmaleimide I and III significantly blocked differentiation of CPCs to cardiomyocytes. PKC activation by phorbol 12-myristate 13-acetate significantly increased CPC differentiation to a similar extent as compared with Wnt11-conditioned medium. Our data demonstrate that Wnt11, but not Wnt3A, augments cardiomyogenic differentiation of human CPCs. Wnt11 promotes cardiac differentiation via the non-canonical PKC-dependent signaling pathway.
Revision of the Questionnaire for the Sasang Constitution Classification (2003)

Background In Sasang Constitutional Medicine (SCM), human beings are classified into four constitutions: Taeyangin, Taewnin, Soyangin, and Soeumin. SCM presents various lifestyles and treatments for each constitution. The problem of SCM is that its diagnosis is so subjective that the result of the diagnosis depends on the doctor. In order to solve this problem, multiple approaches have been objectively researched. To use a questionnaire is the most common method among the different approaches. Since there are a few problems in the Questionnaire for the Sasang Constitution Classification II (QSCC II), which in recent days has been used frequently, the necessity of a new questionnaire has arisen. Objective The purpose of this study is to develop a new questionnaire for the objectivity of the Sasang Constitution Classification by complementing the existing questionnaire. Methods In order to search for the existing questionnaire's problems, I first compare the ratio of the amount of questions regarding external appearance to that of questions of mental characteristics and physiologic & pathologic symptoms in QSCCII and QSCCII +. We created the new questionnaires by reinterpreting Soose through SCM professors' and medical residents' discussion and by adding some items related to the diagnosis about the constitution from other SCM books and clinical experience. Results 1. The new questionnaire for the Sasang Constitution Classification is self-reported questionnaire based on a multiple choice system of 4 questions. 2. The new questionnaire for the Sasang Constitution Classification consists of 28 questions, which include 7 questions about external appearance, 4 questions about mental characteristics, and 17 questions about physiologic & pathologic symptoms. 3. The new questionnaire for the Sasang Constitution Classification consists of 24 questions of Taeyangin, 28 of Taeumin, 28 of Soyongin, 28 of Soeumin. 4. We will have to verify validity and reliability of new questionnaire for rhe Sasang Constitution Classification.
TDOA Based Indoor Positioning with NLOS Identification by Machine Learning (2018)

Indoor positioning technology has broad application prospects, such as intelligent indoor navigation and security monitoring. However, due to the complex and varied indoor scattering environment, non-line-of-sight (NLOS) propagation seriously affects the accuracy of positioning. In this paper, we investigate the NLOS propagation identification for time difference of arrival (TDOA) based positioning in indoor environment. We analyze the correlations between measured distances based on TDOA and select measured distances to identify NLOS data. A new NLOS classification method is proposed based on machine learning to improve positioning accuracy. Numerical results demonstrate the performance of the proposed positioning method.