Miracle-dz/UniFAR-FTUs huggingface dataset:
A Jumonji (Jarid2) Protein Complex Represses cyclin D1 Expression by Methylation of Histone H3-K9*

Covalent modifications of histone tails have critical roles in regulating gene expression. Previously, we identified the jumonji (jmj, Jarid2) gene, the jmjC domain, and a Jmj family. Recently, many Jmj family proteins have been shown to be histone demethylases, and jmjC is the catalytic domain. However, Jmj does not have histone demethylase activity because the jmjC domain lacks conserved residues for binding to cofactors. Independently of these studies, we previously showed that Jmj binds to the cyclin D1 promoter and represses the transcription of cyclin D1. Here, we show the mechanisms by which Jmj represses the transcription of cyclin D1. We found that a protein complex of Jmj had histone methyltransferase activity toward histone H3 lysine 9 (H3-K9). We also found that Jmj bound to the H3-K9 methyltransferases G9a and GLP. Expression of Jmj recruited G9a and GLP to the cyclin D1 promoter and increased H3-K9 methylation. Inactivation of both G9a and GLP, but not of only G9a, inhibited the methylation of H3-K9 in the cyclin D1 promoter and repression of cyclin D1 expression by Jmj. These results suggest that Jmj methylates H3-K9 and represses cyclin D1 expression through G9a and GLP, and that Jmj family proteins can regulate gene expression by not only histone demethylation but also other histone modification.
Bacteriological and biochemical assessment of marinating cephalopods, crustaceans and gastropoda during 24 weeks of storage

The quality and safety parameters of mixed marinated seafood salad containing common octopus (Octopus vulgaris), shrimp (Parapenaeus longirostris), European squid (Loligo vulgaris), sea snail (Rapana thomasiana) and common cuttlefish (Sepia officinalis) at 4°C during storage of 24 weeks were investigated. In addition, the nutritional value in terms of proximate and fatty acid composition of seafood salad was also determined. Sensory scores of seafood salad in terms of appearance, odour, flavour and texture slightly decreased throughout the storage period. However, at the end of the storage period (5 months), the marinated seafood salad was still acceptable by the panellist. At the beginning of storage the total volatile basic nitrogen (TVB-N) value was 6.05 mg/100 g flesh, and the TVB-N values rose to 11.19 mg TVB-N/ flesh by the end of the storage period. The pH value of the marinated seafood salad showed fluctuations, ranging from 3.57 to 3.65, and did not change significantly during the storage period. The concentrations of the biogenic amines in both the muscle of all species and in the solution of salad were also investigated. Among the biogenic amines, histamine was not detected in all samples throughout the storage period. The putrescine and cadaverine levels increased throughout the storage period, with a lower increase in the solution of seafood salad. Salmonella, coliform, Escherichia coli and Staphylococcus aureus were not detected while the total viable count remained low (3 log CFU/g) after 3 months of storage.
Predicting Job Performance: Does the Work Context Matter?

The majority of current research emphasizes the role of individual differences in explaining variance in job performance, while fewer studies incorporate antecedents related to the work context. Furthermore, studies that explore the impact of variables related to the work context fail to do so in a holistic way. This paper attempts to address the limitations associated with this research by identifying important categories of variables related to the work context and using these categories as a basis for exploring the role of contextual variables in explaining variance in job performance
Stimulation of aryl metabolite production in the basidiomycete Bjerkandera sp. strain BOS55 with biosynthetic precursors and lignin degradation products

Aryl metabolites are known to have an important role in the ligninolytic system of white rot fungi. The addition of known precursors and aromatic acids representing lignin degradation products stimulated the production of aryl metabolites (veratryl alcohol, veratraldehyde, p-anisaldehyde, and 3-chloro-p-anisaldehyde) in the white rot fungus Bjerkandera sp. strain BOS55. The presence of manganese (Mn) is known to inhibit the biosynthesis of veratryl alcohol (T. Mester, E. de Jong, and J.A. Field, Appl. Environ. Microbiol. 61:1881-1887, 1995). A new finding of this study was that the production of the other aryl metabolites, p-anisaldehyde and 3-chloro-p-anisaldehyde, was also inhibited by Mn. We attempted to bypass the Mn-inhibited step in the biosynthesis of aryl metabolites by the addition of known and suspected precursors. Most of these compounds were not able to bypass the inhibiting effect of Mn. Only the fully methylated precursors (veratrate, p-anisate, and 3-chloro-p-anisate) provided similar concentrations of aryl metabolites in the presence and absence of Mn, indicating that Mn does not influence the reduction of the benzylic acid group. The addition of deuterated benzoate and 4-hydroxybenzoate resulted in the formation of deuterated aryl metabolites, indicating that these aromatic acids entered into the biosynthetic pathway and were common intermediates to all aryl metabolites. Only deuterated chlorinated anisyl metabolites were produced when the cultures were supplemented with deuterated 3-chloro-4-hydroxybenzoate. This observation combined with the fact that 3-chloro-4-hydroxybenzoate is a natural product of Bjerkandera spp. (H. J. Swarts, F. J. M. Verhagen, J. A. Field, and J. B. P. A. Wijnberg, Phytochemistry 42:1699-1701, 1996) suggest that it is a possible intermediate in chlorinated anisyl metabolite biosynthesis.
BRINGING CLASS (BACK) IN: METHODOLOGICAL REFLECTIONS ON SOCIAL CLASS AND REPRESENTATION

Research on the political representation of socially disadvantaged groups has strongly focused on women and ethnic minorities while social classes have been underexposed. There are some good reasons for this: the declining relevance of class in modern society, the incorporation of class interests in political parties and the way researchers have been struggling with operationalising the social class of parliamentarians. In this article, we will try to answer these objections and will demonstrate a method to overcome the methodological difficulties.
Trap-limited hydrogen diffusion in a-Si:H.

Hydrogen transport in a-Si:H was investigated by deuterium diffusion experiments where the deuterium source was either a remote atomic deuterium plasma or a deuterated amorphous silicon layer. An enhanced hydrogen diffusion and a considerably lower diffusion activation energy (0.5 eV instead of 1.2-1.5 eV) is observed for diffusion from a plasma. This behavior is attributed to saturation of hydrogen configurations with high binding energy, which act as deep hydrogen traps and control hydrogen transport in diffusion experiments from a deuterated layer, by deuterium atoms injected from the plasma
Network-wide intrusion detection supported by multivariate analysis and interactive visualization

In this paper, we introduce a new visualization tool for network-wide intrusion detection. It is based in multivariate anomaly detection with a combination between Principal Component Analysis (PCA) and a new variant called Group-wise PCA (GPCA). Combining these methodologies with the capabilities of interactive visualization, the resulting tool is a highly flexible and intuitive interface that allows the user to navigate through the enormous amount of data collected in the network, in order to find anomalous or unexpected behaviors. We use a real case study to illustrate the capability of the tool to unveil the complex mixture of information that can be found in network security/traffic data and identify and diagnose anomalies in it.
Two-component regulatory systems can interact to process multiple environmental signals

The PhoP/PhoQ two-component system of Salmonella typhimurium governs transcription of some 25 loci in response to the extracellular concentration of Mg2+. We have now identified one of these loci as pmrCAB, which codes for a two-component system that mediates resistance to the antibiotic polymyxin B. Transcription of seven of 25 PhoP-activated loci was dependent on a functional PmrA protein, the response regulator of the PmrA/PmrB system. Expression of the PmrA-dependent loci was induced by either Mg2+ limitation or mild acidification, whereas transcription of a PmrA-independent gene was activated by Mg2+ limitation but not acid pH. Induction of PmrA-activated genes by Mg2 limitation required the PhoP and PhoQ proteins. In contrast, the acid-mediated activation of PmrA-regulated genes occurred in strains that were missing either one of these proteins. Transcriptional regulation by a cascade of two-component systems allows pathogenic bacteria to express their virulence determinants in response to a broader spectrum of environmental cues.
A simulation study of block management in BitTorrent

Among the existing P2P systems for content distribution, BitTorrent (BT) is the most popular one which has attracted keen attentions from both industrial and academic forces in recent years. Its superior performance is due to the multipart downloading scheme by dividing the large file into thousands of small blocks to enable the cooperative downloading among participants. Since transmissions are provoked by interested blocks only, the block distribution will seriously affects the performance of the system, i.e., robustness and throughput. As a result, how to manage the circulation of blocks is important both theoretically and practically. BT leverages on the Local Rarest First scheme to pursue the even distribution of blocks to help peers locate what they need easily. Surprisingly, how good is its performance with heterogenous networks has never received research attention before and this motivates our work. In this study, we carried out simulations to investigate the evolution of block distribution in BT. We find that the block distribution is far from optimal in terms of block frequency (with some blocks dominating the network and some becoming extinct nearly) and topology (with same blocks tending to conglomerate). We also propose a simple source coding mechanism to achieve a BT like network with much improved performance in this view.
Whatever Happened to the Jock, the Brain, and the Princess?

This study examined young adult sequelae of participation in high school activities and identity group for 900 participants from the Michigan Study of Life Transitions.Participation at Grade 10 in high school activities predicted later substance use, psychological adjustment, and educational and occupational outcomes.Prosocial activity participation predicted lower substance use and higher self-esteem and an increased likelihood of college graduation.Performing arts participation predicted more years of education as well as increases in drinking between ages 18 and 21 and higher rates of suicide attempts and psychologist visits by the age of 24.Sports participation predicted positive educational and occupational outcomes and lower levels of social isolation but also higher rates of drinking. Breakfast Club identity categories were predictive of both levels and longitudinal patterns in substance use, education and work outcomes, and psychological adjustment.In general, Jocks and Brains showed the most positive adjustment and Criminals the least.
The Synthesis and Antitumor Activity of the Sodium Salt and Copper (II) Complex of N-[(Trimethylamineboryl)-Carbonyl]-L-Phenylalanine Methyl Ester

Sodium N-[(trimethylamineboryl)-carbonyl]-L-phenylalanine 2 and {N-[(trimethylamineboryl)-carbonyl]-L-phenylalanyl- carbxylato}-bis-{N-[(trimethylaminebryl)-carbonyl]-L-phenylalanine} dicopper (II) 3 were successfully synthesized. The agents blocked L1210 leukemic cell DNA and RNA syntheses by inhibiting multiple enzyme activities for nucleic acid synthesis, e.g. PRPP amido transferase, IMP dehydrogenase, DNA polymerase α, thymidine kinase, and TMP kinase. The copper (II) complex 3 demonstrated improved ability to inhibit L1210 partially purified DNA topoisomerase II compared to the parent compound while the sodium salt was inactive at 100 μM.
Parameter Estimation-Based Fault Detection, Isolation and Recovery for Nonlinear Satellite Models

This brief is concerned with the problem of nonlinear fault detection, isolation, and recovery (FDIR) for the satellite's orbital and attitude models through construction of residual generators that are based on least-squares parameter estimation techniques. By viewing system anomalies caused by faults and/or malfunctions as changes of certain parameters in the system, our goal is to detect, isolate, and recover from faults through estimating these parameters and adaptively redesigning and reconfiguring the controllers. The convergence and robustness properties of the residual generators are analytically and experimentally investigated. Furthermore, the corresponding decision logic and thresholds for fault diagnosis are properly selected and specified. Numerical simulation results for the proposed technique as applied to nonlinear satellite models are presented to demonstrate its performance capabilities.
The effects of working conditions on health status: Simultaneous decisions on health and job satisfaction domains

The present paper seeks to examine the impact of working conditions on self-assessed health besides that expected to affect job satisfaction. We undertake this analysis assuming simultaneous decisions on reporting both satisfaction domains. For this purpose, we estimate simultaneously two probit procedures (those reporting a bad self-assessed health and being dissatisfied). Our results show that indicators for working conditions besides affecting job satisfaction do not condition self-assessed health status. Notwithstanding, our most relevant finding constitutes that job satisfaction would be conditioning self-assessed health. As a consequence, we can assure that job satisfaction presents association with health status. Hence, working conditions would have an indirect effect through job satisfaction on self-assessed health status. Furthermore, results should distinguish differential feelings by gender, especially when examining job satisfaction domain.
The role of personality pathology in depression treatment outcome with psychotherapy and pharmacotherapy.

BACKGROUND Depressed patients with comorbid personality pathology may fare worse in treatment for depression than those without this additional pathology, and comorbid personality pathology may be associated with superior response in one form of treatment relative to another, though recent findings have been mixed. We aimed to evaluate the effect of personality pathology on time to remission of patients randomly assigned to 1 of 2 treatment strategies for depression and to determine whether personality pathology moderated the effect of treatment assignment on outcome. METHOD Individuals undergoing an episode of unipolar major depression (n = 275) received interpersonal psychotherapy (Klerman, Weissman, Rounsaville, & Chevron, 1984) or selective serotonin reuptake inhibitor (SSRI) pharmacotherapy for depression. Depressive symptoms were measured with the HRSD-17. Remission was a mean HRSD-17 score of 7 or below over a period of 3 weeks. Personality disorders were measured according to SCID-II diagnoses, and personality pathology was measured dimensionally by summing the positive probes on the SCID-II. RESULTS The presence of at least 1 personality disorder was not a significant predictor of time to remission, but a higher level of dimensionally measured personality pathology and the presence of borderline personality disorder were associated with a longer time to remission. Personality pathology did not moderate the effect of treatment assignment on time to remission. CONCLUSIONS The findings suggest that depressed individuals with comorbid personality pathology generally fare worse in treatment for depression, although in this report, the effect of personality pathology did not differ by the type of treatment received.
Global analysis of community-associated methicillin-resistant Staphylococcus aureus exoproteins reveals molecules produced in vitro and during infection

Community‐associated methicillin‐resistant Staphylococcus aureus (CA‐MRSA) is a threat to human health worldwide. Although progress has been made, mechanisms of CA‐MRSA pathogenesis are poorly understood and a comprehensive analysis of CA‐MRSA exoproteins has not been conducted. To address that deficiency, we used proteomics to identify exoproteins made by MW2 (USA400) and LAC (USA300) during growth in vitro. Two hundred and fifty unique exoproteins were identified by 2‐dimensional gel electrophoresis coupled with automated direct infusion‐tandem mass spectrometry (ADI‐MS/MS) analysis. Eleven known virulence‐related exoproteins differed in abundance between the strains, including alpha‐haemolysin (Hla), collagen adhesin (Cna), staphylokinase (Sak), coagulase (Coa), lipase (Lip), enterotoxin C3 (Sec3), enterotoxin Q (Seq), V8 protease (SspA) and cysteine protease (SspB). Mice infected with MW2 or LAC produced antibodies specific for known or putative virulence factors, such as autolysin (Atl), Cna, Ear, ferritin (Ftn), Lip, 1‐phosphatidylinositol phosphodiesterase (Plc), Sak, Sec3 and SspB, indicating the exoproteins are made during infection in vivo. We used confocal microscopy to demonstrate aureolysin (Aur), Hla, SspA and SspB are produced following phagocytosis by human neutrophils, thereby linking exoprotein production in vitro with that during host–pathogen interaction. We conclude that the exoproteins identified herein likely account in part for the success of CA‐MRSA as a human pathogen.
Association mapping of complex diseases in linked regions: estimation of genetic effects and feasibility of testing rare variants

Association mapping in linked regions is a current major approach for the identification of genes for complex diseases. Loci contributing to linkage, even with small values of sibling recurrence risk (λs), may be equivalent to substantial underlying genetic effects for association studies. For disease alleles with a frequency as low as 1%, highly reliable association studies (80% power for significance level α=10−6) require only 277, 781, and 1,289 families or cases and controls for loci detected with λs of 1.5, 1.1, and 1.05, respectively, under a multiplicative genetic model. Under alternative models, provided epistatic effects are minor, larger achievable sample sizes will provide sufficient power to map almost any disease gene that may have initially contributed to linkage. Genet Epidemiol 24:36–43, 2003. © 2003 Wiley‐Liss, Inc.
On cost-effective communication network designing

How to efficiently design a communication network is a paramount task for network designing and engineering. It is, however, not a single objective optimization process as perceived by most previous researches, i.e., to maximize its transmission capacity, but a multi-objective optimization process, with lowering its cost to be another important objective. These two objectives are often contradictive in that optimizing one objective may deteriorate the other. After a deep investigation of the impact that network topology, node capability scheme and routing algorithm as well as their interplays have on the two objectives, this letter presents a systematic approach to achieve a cost-effective design by carefully choosing the three designing aspects. Only when routing algorithm and node capability scheme are elegantly chosen can BA-like scale-free networks have the potential of achieving good tradeoff between the two objectives. Random networks, on the other hand, have the built-in character for a cost-effective design, especially when other aspects cannot be determined beforehand.
CCL2 Polymorphisms Are Associated With Serum Monocyte Chemoattractant Protein-1 Levels and Myocardial Infarction in the Framingham Heart Study

Background—Monocyte chemoattractant protein-1 (MCP-1) is a chemokine strongly implicated in promoting atherosclerosis in animal models, but human genetic evidence is contradictory. Methods and Results—We analyzed the association of genetic variation in the MCP-1 gene (CCL2) with prevalent myocardial infarction and serum MCP-1 levels in the community-based Framingham Heart Study Offspring Cohort (50% women; mean age, 62 years). MCP-1 levels and CCL2 genotypes were determined in 3236 and 1797 individuals, respectively. Significant clinical correlates of MCP-1 levels were age, cigarette smoking, triglycerides, body mass index, and waist-to-hip ratio. The MCP-1-2578G allele located in the CCL2 regulatory region was significantly associated with both higher serum MCP-1 levels in a recessive genetic model (358±10 versus 328±3 pg/mL; P=0.002) and higher prevalence of myocardial infarction in a dominant genetic model (adjusted odds ratio, 2.0; 95% CI, 1.2 to 3.3; P=0.005). We also defined the linkage disequilibrium structure at the CCL2 locus and observed 6 common haplotypes in whites. We performed haplotype-based association analysis and found that only the most frequent haplotype, defined by the MCP-1-2578G allele, was associated with prevalent MI. Conclusions—Our data are consistent with the hypothesis that MCP-1 is involved in the pathogenesis of human atherosclerosis and myocardial infarction.
The mechanism of acetylcholine release from parasympathetic nerves

1. The output of acetylcholine from the plexus of the guinea‐pig ileum longitudinal strip has been used to study the mechanism of acetylcholine release. From the effects of hexamethonium and tetrodotoxin, it was inferred that 60% of the normal resting output is due to propagated activity in the plexus, and 40% to spontaneous release. Tetrodotoxin virtually abolishes the increase in output in response to electrical stimulation.
THE COMPONENT HELMINTH COMMUNITY IN SIX SYMPATRIC SPECIES OF ARDEIDAE

We studied the helminth communities in 6 sympatric species of Ardeidae (Ixobrychus minutus (Linnaeus, 1766), Nycticorax nycticorax (Linnaeus, 1758), Bubulcus ibis (Linnaeus, 1758), Egretta garzetta (Linnaeus, 1766), Ardea cinerea (Linnaeus, 1758), and Ardea purpurea (Linnaeus, 1766)) from “La Albufera de Valencia,” Spain. The survey revealed 13 species of helminth parasites: 5 digeneans, 2 cestodes, and 6 nematodes. The component helminth communities of the Ardeidae examined are depauperate and conform to the pattern typically found in isolationist communities, probably because of their high trophic dependence on a few prey species. Evenness was positively correlated with richness and abundance, but host body weight was not correlated with the number of helminth species or with the total number of helminths. Ardea cinerea is more heavily infected than E. garzetta by Apharyngostrigea cornu, and B. ibis is more heavily infected than both Ardea cinerea and E. garzetta by Desportesius spinulatus. Apharyngostrigea cornu was positively associated with Desmidocercella numidica and D. spinulatus in A. cinerea.