Miracle-dz/UniFAR-FTUs huggingface dataset:
Extensive and bidirectional transfer of major histocompatibility complex class II molecules between donor and recipient cells in vivo following solid organ transplantation

Intercellular transfer of surface molecules has been demonstrated in vitro, or in vivo under artificial situations. Transplantation is a unique clinical situation in which foreign major histocompatibility complex (MHC) molecules are deliberately introduced. This provides a model to study intercellular MHC transfer because donor MHC molecules can easily be tracked. Here we describe the bidirectional transfer of MHC class II molecules between donor and recipient cells after transplantation of vascularized kidney and cardiac allografts in mice. Cells that are positive for both donor and recipient MHC class II accounted for up to 30% of the donor MHC class II+ population, suggesting that they play a significant role in the antigen presentation process. The majority of these cells were dendritic cells, but macrophages and B cells were also able to acquire foreign MHC molecules. Most doublepositive cells were also positive for costimulatory molecules, indicating a capability to elicit a T‐cell response. This transfer of MHC molecules between donor and recipient cells provides a link between the direct and indirect pathways of alloantigen presentation and suggests that MHC transfer is also likely to occur under normal physiological conditions, which has implications in the fields of infection, vaccination, and tumor immunology. — Brown, K. , Sacks, S. H. , Wong, W. Extensive and bidirectional transfer of major histocompatibility complex class II molecules between donor and recipient cells in vivo following solid organ transplantation. FASEB J. 22, 3776–3784 (2008)
IMPLEMENTASI KURIKULUM DALAM PEMBENTUKAN KARAKTER SISWA KELAS III SD TA’MIRUL ISLAM SURAKARTA

The type of this research is a qualitative field research. The data collection used in thisresearch is observation method, interview, and documentation. In the qualitative descriptiveanalysis using inductive approach. The result of these research are; firstly; themanagement of curriculum in forming student’s character in Ta’mirul Islam ElementarySchool of Surakarta, consist of several points, there are: the process of learningcurriculum planning which consist of staff coordination meeting and early meeting bymaking learning administration. Secondly, implementing curriculum that forming somecharacter, such as discipline and responsible, in line with some good habituation likereciting a holy Qur’an, patriotism, obligatory, and sunnah prayer, doing exercise, theimplementation of student’s monitoring book, assignments, and charity and religiousactivities such as charity’s camp and pesantren ramadhan. Thirdly, the evaluation ofimplementation activities in forming the character that packed in supervision and monitoringactivities. The management of curriculum implementation which build third classin Ta’mirul Islam Elementary School of Surakarta is really affective and efficient, sothat many educational success can be reached in academic as well as in non-academicsector’s, especially in building discipline and responsible character. There are severaldifficulties that management of curriculum implementation face in building charactersuch as, the number of students, the students economic background, a little gap betweenschool and student’s parents, less communication, the distance of students homewith school, and some other student’s environment factors that unsupported
A Worklow Management Platform for Scientific Applications in Grid Environments

Workflow management systems allow the development of complex applications at a higher level, by orchestrating functional components without handling the implementation details. Although a wide range of workflow engines are developed in enterprise environments, the open source engines available for scientific applications lack some functionalities or are too difficult to use for non-specialists. Moreover, the key middleware services in grids, like meta-schedulers, employ complex resource matching logic, but lack control flow orchestration capabilities. On the other hand, workflow engines suitably control process logic but are unaware of execution requirements of tasks. In this paper we present PEGAF, a workflow management platform for distributed systems targeted at scientific applications. Our platform provides features like an intuitive way to describe workflows and flexible fault tolerance support, while integrating both workflow orchestration and meta-scheduling. We validate our integrated platform within several test scenarios, outlining a significant performance increaseflow orchestration solutions.
Didanosine pharmacokinetics in patients with normal and impaired renal function: influence of hemodialysis

The pharmacokinetics of didanosine were investigated following oral administration of a single 375-mg dose to eight human immunodeficiency virus-seropositive patients with normal renal function and eight human immunodeficiency virus-seropositive uremic patients. In uremic patients, the plasma half-life was longer than that in control patients (respectively, 4.5 +/- 2.2 and 1.6 +/- 0.4 h). The ratio of total plasma clearance to absolute bioavailability was four- to fivefold lower in uremic patients than in patients with normal renal function (respectively, 491 +/- 181 and 2,277 +/- 738 ml/min). Because of the decrease in elimination, concentrations in plasma were higher for uremic patients than for control patients; the maximum concentrations of drug in plasma were, respectively, 3,978 +/- 1,607 and 1,948 +/- 994 ng/ml; the areas under the concentration-time curve were, respectively, 14,050 +/- 4,262 and 3,000 +/- 956 ng.h/ml. Didanosine was removed by hemodialysis with an extraction ratio of 53% +/- 8%, a hemodialysis clearance value of 107 +/- 21 ml/min, and a fractional drug removal during a 4-h dialysis of 20% +/- 8% of the dose. Dosage adjustments are necessary in uremic patients.
Gene Expression and Gene Ontology Enrichment Analysis for H3K4me3 and H3K4me1 in Mouse Liver and Mouse Embryonic Stem Cell Using ChIP-Seq and RNA-Seq

Recent study has identified the cis-regulatory elements in the mouse genome as well as their genomic localizations. Recent discoveries have shown the enrichment of H3 lysine 4 trimethylation (H3K4me3) binding as an active promoter and the presence of H3 lysine 4 monomethylation (H3K4me1) outside promoter regions as a mark for an enhancer. In this work, we further identified highly expressed genes by H3K4me3 mark or by both H3K4me3 and H3K4me1 marks in mouse liver using ChIP-Seq and RNA-Seq. We found that in mice, the liver carries embryonic stem cell-related functions while the embryonic stem cell also carries liver-related functions. We also identified novel genes in RNA-Seq experiments for mouse liver and for mouse embryonic stem cells. These genes are not currently in the Ensemble gene database at NCBI.
Knowledge Extraction and Recurrent Neural Networks: An Analysis of an Elman Network trained on a Natural Language Learning Task

We present results of experiments with Elman recurrent neural networks (Elman, 1990) trained on a natural language processing task. The task was to learn sequences of word categories in a text derived from a primary school reader. The grammar induced by the network was made explicit by cluster analysis which revealed both the representations formed during learning and enabled the construction of state-transition diagrams representing the grammar. A network initialised with weights based on a prior knowledge of the text's statistics, learned slightly faster than the original network.
Citizens and Policymakers ∗

We investigate the effectiveness of an aggressive price stabilizing (antiinflation) policy on the ability of citizens to achieve rational expectations equilibrium (REE) forecasts of inflation. Inflation does not persist when citizens have rational expectations forecasts. In using policy to assist citizens in achieving REE forecasts, policymakers also reduce inflation persistence. An aggressive anti-inflation policy tack consists of (among other things) a willingness to respond more forcefully to deviations from an inflation target. Using an adaptive learning framework, we develop a model that uses a real contracting rigidity in conjunction with an interest rate rule and an IS-curve. The model equilibrium indicates that only an aggressive anti-inflation policy enables citizens to learn the REE inflation forecast. The model also shows that inflation persistence has a negative relationship with policy aggressiveness. We test the model using quarterly inflation data for the period 1960 to 2000. The results indicate that policy becomes aggressive in the early 1980s. A substantial reduction in inflation persistence follows this change in policy. ∗ Note: Granato is Political Science Program Director, National Science Foundation, Suite 980, 4201 Wilson Boulevard, Arlington, Virginia, 22230 (e-mail: jgranato@nsf.gov). Wong is in the Department of Economics, University of Oregon, Eugene, Oregon 97403 (e-mail: wong@darkwing.uoregon.edu). The views and findings in this paper are those of the authors and do not necessarily reflect those of the National Science Foundation.
Machine learning reveals sex‐specific 17β‐estradiol‐responsive expression patterns in white perch (Morone americana) plasma proteins

With growing abundance and awareness of endocrine disrupting compounds (EDCs) in the environment, there is a need for accurate and reliable detection of EDC exposure. Our objective in the present study was to observe differences within and between the global plasma proteomes of sexually mature male and female white perch (Morone americana) before (Initial Control, IC) and after 17β‐estradiol (E2) induction. Semiquantitative nanoLC‐MS/MS data were analyzed by machine learning support vector machines (SVMs) and by two‐way ANOVA. By ANOVA, the expression levels of 44, 77, and 57 proteins varied significantly by gender, treatment, and the interaction of gender and treatment, respectively. SVMs perfectly classified male and female perch IC and E2‐induced plasma samples using the protein expression data. E2‐induced male and female perch plasma proteomes contained significantly higher levels of the yolk precursors vitellogenin Aa and Ab (VtgAa, VtgAb), as well as latrophilin and seven transmembrane domain‐containing protein 1 (Eltd1) and kininogen 1 (Kng1). This is the first report that Eltd1 and Kng1 may be E2‐responsive proteins in fishes and therefore may be useful indicators of estrogen induction.
Distributed estimation of lumped parameters of multi-zone small-middle size commercial buildings with minimal observations & implementation

Installation of an energy management system (EMS) that could minimize the buildings peak load can be impractical, having a long and uncertain return on investment. Identification of building thermal lumped parameters 1) using only zone and supply air temperature measurements for constant- and variable-air volume HVAC equipment, and 2) a distributed algorithm for buildings with large number of zones is discussed for inexpensive thermostatic control retrofits as alternative to traditional supervisory Heat, Ventilation, and Air-Conditioning (HVAC) controller. The challenges in implementation of the proposed approach at two New York State buildings for demonstration and analysis are described: One building which we retrofitted with low-cost off-the-shelf wireless sensors and another building which was recently renovated and fitted with a new HVAC system with the state-of-art supervisory controllers. The differences in simulation-based (e.g., TrnSysTM) analysis and on-site implementation are highlighted. Finally, the results and performance of the proposed distributed estimation algorithm on the actual data from demonstration buildings are provided.
Systematic Sources of Suboptimal Interface Design in Large Product Development Organizations

Many poor interface features are the result of carelessness, ignorance, or neglect in the development process. For these features, methods such as user involvement in iterative design with prototyping, the use of check lists and guidelines, and even formal evaluation can be of great help. However, there are strong forces present in development environments that block the use of such methods and distort interface designs in a systematic way. Because these forces serve legitimate goals, such as making a design simpler, more easily communicated, or more marketable, they are more difficult to counter; because developers are skilled at working toward those goals, the tangential effects on the interface usually pass unnoticed. This descriptive, empirical article describes these forces in the context of large organizations developing commercial off-the-shelf software products. Most points are supported by examples and by a logical argument. Not all of the phenomena may appear in a given development organization, but the overall picture of a complex environment in which interface development requires unwavering attention is quite general.
Textbook Sexual Inadequacy? A Review of Sexuality Texts.

This article reviews eight current human sexuality textbooks both for their general organization and for their substantive content. Eight specific content areas are addressed: 1) sexual response cycle, 2) sexual dysfunction, 3) acquaintance rape, 4) AIDS and sexually transmitted diseases, 5) extramarital sex, 6) abortion, including historical and cross-cultural material, 7) homosexuality, including historical and cross-cultural material, and 8) pornography, including its effects and historical and cross-cultural material. A recurring issue is the lack of historical and cross-cultural material necessary to help the reader understand the relationship between sexuality and society.
The Impact of Accumulating and Reactivating Technological Experience on R&D Alliance Performance

Drawing on organizational learning theory, we distinguish the entrepreneurial processes of experience accumulation (i.e. gaining technological experience), and experience reactivation (i.e. leveraging the accumulated experience), as two essential stages of knowledge retention. While controlling for alliance experience, we further use new data of 196 biopharmaceutical R&D alliances to examine the effects of the technology recipient's accumulation and reactivation of technological experience on R&D alliance success. The patent‐based experience measures at the level of specific technology fields provide strong support for distinguishing experience accumulation and reactivation, which positively interact in interorganizational learning. Experience reactivation strengthens the positive effects of experience accumulation on alliance performance, and it contributes to avoiding organizational inertia in intertemporal knowledge transfer. In particular, our newly developed technology‐specific measures help to explain inconsistent findings of earlier studies, which often relied on firm‐level R&D expenditures to capture the level of prior technological knowledge and absorptive capacity.
Assessing the doctoral thesis when it includes published work

In this article we explore how examiners assess a thesis that includes published work. An online survey was used to gather data on approaches to assessing publication-based theses (PBTs). The respondents were 62 supervisors who had experience examining PBTs across a range of disciplines at a research-intensive university in New Zealand. Nearly half of the respondents had examined ‘hybrid’ theses with papers inserted as chapters, 41% had examined theses with publications appended and 14% had examined PhDs by publication (i.e. papers alone). Twenty-nine per cent of examiners used their own extended set of criteria to assess PBTs, 48% found them easier to assess but 26% wanted more guidance. Our analysis also indicated that 86% of the examiners were highly influenced by publications in top-ranked journals and international peer-reviewed journals. Among the concerns of the examiners was the intellectual input of the candidate in any multi-authored publication, as well as the coherence of the thesis. We recommend the need for clearer guidelines for doctoral candidates, supervisors and examiners managing PBTs.
Class I Phosphoinositide-3-Kinases and Src Kinases Play a Nonredundant Role in Regulation of Adhesion-Independent and -Dependent Neutrophil Reactive Oxygen Species Generation

Chemoattractant-induced reactive oxygen species (ROS) generation by adherent neutrophils occurs in two phases: the first is very rapid and transient, and the second one is delayed and lasts up to 30–40 min. We examined the role of phosphoinositide 3-kinases (PI3Ks) and Src-family kinases (SFKs) in these responses using human neutrophils treated with inhibitory compounds or murine neutrophils deficient of PI3Kγ or Hck, Fgr, and Lyn. Our studies show that PI3Kγ is indispensable for the early, fMLF-induced ROS generation and AKT and ERK phosphorylation, but is dispensable for the late response to fMLF. Additionally, the response to TNF, an agonist triggering only the delayed phase of ROS generation, was also unaffected in PI3Kγ-deficient neutrophils. In contrast, inhibition of SFKs by a selective inhibitor in human, or SFK deficiency in murine, neutrophils resulted in the inhibition of both the early and late phase of ROS generation, without affecting the early phase of AKT phosphorylation, but inhibiting the late one. Selective inhibitors of PI3Kα and PI3Kδ markedly reduced both the early and late response to fMLF and TNF in human neutrophils. These findings suggest that class IA PI3Ks may be activated by PI3Kγ via Ras in the early phase of the response and by SFKs in the late phase. The evidence that inhibition of SFKs in human, or SFK deficiency in murine, neutrophils results in suppression of Vav phosphorylation at all time points of the response to fMLF or TNF suggests that SFKs are indispensable for Vav phosphorylation.
On MEMS equation with fringing field

We consider the MEMS equation with fringing field ―Δu=λ(1+δ|∇u| 2 )(1―u) ―2 in Ω, u = 0 on ∂Ω, where λ, δ > 0 and Ω C ℝ n is a smooth and bounded domain. We show that when the fringing field exists (i.e. δ > 0), given any μ > 0, we have a uniform upper bound of classical solutions u away from the rupture level 1 for all λ ≥ μ. Moreover, there exists λ * δ > 0 such that there are at least two solutions when λ ∈ (0,λ * δ ); a unique solution exists when λ = λ * δ ; and there is no solution when λ λ * δ . This represents a dramatic change of behavior with respect to the zero fringing field case (i.e., δ = 0) and confirms the simulations in a paper by Pelesko and Driscoll as well as a paper by Lindsay and Ward.
Sialic Acid Diversity on Two Novel Cross-comparison of Protein Recognition of Glycobiology and Extracellular Matrices :

Matsuda, Richard Schwab, Xi Chen, David F. Raoul J. de Groot, Yi Lasanajak, Haruo Langereis, Ralf Kleene, Melitta Schachner, A. Jiansong Cheng, Andrea Verhagen, Martijn Saddam Muthana, Harshal A. Chokhawala, Yu, Nancy Hurtado-Ziola, Shengshu Huang, Vered Padler-Karavani, Xuezheng Song, Hai Sialoglycan Microarrays Sialic Acid Diversity on Two Novel Cross-comparison of Protein Recognition of Glycobiology and Extracellular Matrices:
Influence of Plasminogen Deficiency on the Contribution of Polymorphonuclear Leucocytes to Fibrin/ogenolysis

Summary Plasminogen knock-out (PG−/−) mice provide an unique opportunity for the study of alternative mediators of fibrinolysis. Polymorphonuclear leucocytes (PMNs) contain non-plasmin fibrinolytic proteases, however the degree to which these cells contribute to fibrin(ogen) degradation in these animals is not known. Thrombi were generated in carotid arteries and jugular veins of PG−/− and wild type (PG+/+) mice following adventitial application of a 20% ferric chloride solution. PMNs, identified histologically on H&E staining and by immunohistochemistry using anti-mouse PMN RB6-8C5 antibody, accumulated within the thrombus by 6 h after the injury and peaked at 24 h. There was significantly greater retention of PMNs within the thrombi of PG−/− mice from 48 to 72 h than in the PG+/+ controls (at 72 h: PG−/− 255 ± 41 cell/mm2 (n = 5), PG+/+ 61 ± 10 cell/mm2 (n = 5), p <0.01 in the arterial thrombi; PG−/− 252 ± 50 cell/mm2 (n = 5), PG+/+ 100 ± 36 cell/mm2 (n = 5), p <0.05 in the venous thrombi), providing potential for more PMN derived fibrinolytic enzymes to be present at late times after a thrombotic challenge in PG−/− mice relative to the PG+/+ controls. Intact PMNs were elicited from the peritoneal cavities of PG−/− and PG+/+ mice following 4% thioglycolate stimulation. In vitro studies showed PMNs from PG−/− mice to release greater quantities of 10% trichloroacetic acid (TCA)-soluble fibrinopeptides from I125-labeled fibrinogen, than cells from PG+/+ controls although these differences did not become apparent until after 24 h of incubation (at 72 h incubation: PG−/− 918 n /10 X 106 cells/0.5 ml, PG+/+ 589 ng/10 X 106 cells/ ml p = 0.005). Furthermore, autoradiographic analysis of the I125labeled fibrinogen degradation products showed the cleavage pattern by PG−/− PMNs to be distinct from that produced by PG+/+ PMNs. These data suggest that a relatively greater role for PMNs-initiated fibrinolysis exists in the setting of plasminogen deficiency, although this prominence only becomes evident more than 24 h after the thrombotic insult. In addition, mechanisms responsible for the process in PG−/− mice may be distinct from those primarily responsible for the process in PMNs from PG+/+ mice.
Personality based public sentiment classification in microblog

In recent years, microblog has become one of the most widely used social media for people to exchange ideas and express emotions. As information propagates fast in social network, it's crucial for governments and public agencies to effectively monitor public sentiment implied in user-generated content. Most previous work of public sentiment analysis takes tweets of different users as a whole without considering the diverse word use of people. Thus, some sentiment words may be neglected in the process of analysis because they are only used by people of specific groups. Inspired by previous psychological findings that personality influences the ways people write and talk, we propose a personality based sentiment classification method. In order to capture more useful but not widely used sentiment words, our approach extracts textual features for people of different personality traits based on the Big Five model. Moreover, we adopt an ensemble learning strategy to utilize both personality related and commonly used textual features. Experimental study shows the effectiveness of our method.
HERO AND INMATE: WORK, PRISONS, AND PUNISHMENT IN CALIFORNIA'S FIRE CAMPS

The debate over penal labor has been a vociferous one, as advocates and proponents have, for at least a century, made their case for or against the practice of putting prisoners to work. Nonetheless, conspicuously absent from this discussion have been the very people who most directly and intimately experience that work: prison inmates. In this article, I examine penal labor as it unfolds in one particular carceral site, namely California's prison fire camps in which state prisoners do manual labor and fight fires. The results reveal that binaries in which prison labor is positioned as either entirely good or entirely exploitative do not mesh well with the multifaceted experiences of those on the ground, who find elements of both at play. The fire camps are, therefore, an atypical case study that will hopefully serve as impetus for more research into the experiences of prisoner workers, as well as a starting point for deepening and complicating the existing debate over work and punishment.