Miracle-dz/UniFAR-FTUs huggingface dataset:
Distinctive Signatures of Histone Methylation in Transcribed Coding and Noncoding Human (cid:2) -Globin Sequences (cid:1) †

The establishment of epigenetic marks, such as methylation on histone tails, is mechanistically linked to RNA polymerase II within active genes. To explore the interplay between these modiﬁcations in transcribed noncoding as well as coding sequences, we analyzed epigenetic modiﬁcation and chromatin structure at high resolution across 300 kb of human chromosome 11, including the (cid:1) -globin locus which is extensively transcribed in intergenic regions. Monomethylated H3K4, K9, and K36 were broadly distributed, while hyper- methylated forms appeared to different extents across the region in a manner reﬂecting transcriptional activity. The trimethylation of H3K4 and H3K9 correlated within the most highly transcribed sequences. The H3K36me3 mark was more broadly detected in transcribed coding and noncoding sequences, suggesting that K36me3 is a stable mark on sequences transcribed at any level. Most epigenetic and chromatin structural features did not undergo transitions at the presumed borders of the globin domain where the insulator factor CTCF interacts, raising questions about the function of the borders. The amino-terminal tails of histones are subject to various posttranscriptional modiﬁcations in eukaryotic cells, including acetylation, methylation, phosphorylation, and ubiquitinyla-tion (5).
Phase Synchronization in Clocks for Distributed Wireless Network

of the Dissertation Phase Synchronization in Clocks for Distributed Wireless Network by Divashree Varshney Master of Science in Electrical and Computer Engineering Northeastern University, August 2020 Prof. Kaushik Chowdhury, Adviser This thesis is concerned with the design and implementation of low-power, stand-alone hardware solution that achieves highly accurate pairwise time and phase synchronization to ensure timing errors remain below 5ns for indoor and GPS-denied environments. Nanosecond-level wireless clock synchronization is required for realizing the full potential of next generation wireless systems like distributed coordinated beamforming, and thus, the work performed through this thesis will be an enabling systems contribution in this space. Our solution provides a phase synchronized 10MHz and 1 pulse per second signal from a reference clock (called as leader) that is distributed to all other clocks (called as followers). The hardware solution we develop can be easily integrated with commercial-off-the-shelf software defined radios. While many works have developed frequency synchronization methods, how to ensure that each processing step occurs at the same rising edge of the clock needs novel approaches. Our approach uses an ultra wide band (UWB)-based method that performs accurate ranging and corrects the minor phase differences in arriving signals that cause misalignment between the edges. We implement this method using Decawave’s DW1000 UWB module and demonstrate picosecond-level timestamping of packet processing actions. This allows us to accurately estimate over-the-air propagation delay and clock offset through carefully constructed poll packets. We evaluate the system’s performance with respect to timestamping accuracy, ranging accuracy and clock synchronization accuracy through a comprehensive body of experiments.
University of Birmingham Tolerogenic effects of 1,25-dihydroxyvitamin D on dendritic cells involve induction of fatty acid synthesis

The active form of vitamin D, 1,25-dihydroxyvitamin D (1,25D) is a potent regulator of immune function, promoting anti-inflammatory, tolerogenic T cell responses by modulating antigen presentation by dendritic cells (DC). Transcriptomic analyses indicate that DC responses to 1,25D involve changes in glycolysis, oxidative phosphorylation, electron transport and the TCA cycle. To determine the functional impact of 1,25D-mediated metabolic remodelling, human monocyte-derived DC were differentiated to immature ( + vehicle, iDC), mature ( + LPS, mDC), and immature tolerogenic DC ( + 1,25D, itolDC) and characterised for metabolic function. In contrast to mDC which showed no change in respiration, itolDC showed increased basal and ATP-linked respi- ration relative to iDC. Tracer metabolite analyses using 13 C -labeled glucose showed increased lactate and TCA cycle metabolites. Analysis of lipophilic metabolites of 13 C-glucose revealed significant incorporation of label in palmitate and palmitoleate, indicating that 1,25D promotes metabolic fatty acid synthesis in itolDC. Inhibition of fatty acid synthesis in itolDC altered itolDC morphology and suppressed expression of CD14 and IL-10 by these cells. These data indicate that the ability of 1,25D to induce tolerogenic DC involves metabolic remodelling leading to synthesis of fatty acids. and itolDC obtained from 5 different donors. To report significance differences in the relative of each isotopologue of a metabolite, multiple paired student ’ s t test were performed. Metabolite tracer pool and glucose aportation: To compare in the overall metabolite and glucose to form polar metabolites between iDC and itolDC a paired student ’ s t test was used.
Cylindrical tangent cones and the singular set of minimal submanifolds

The question of what can be said about the structure of the singular set of minimal surfaces and the extrema of other geometric variational problems has remained largely open. Indeed, for minimal surfaces, apart from various upper bounds on the possible dimension of the singular set (see, e.g., [1], [5], [7], [8], [10], [13], [17], [19]), little has been known beyond the work of Jean Taylor [22], [23] and Brian White [24], [25] concerning mod p and " (M, ε, δ)" minimizing hypersurfaces, where the tangent cones are of very special (and unvarying) type, and there are topological obstructions to perturbing away the singularities. Here we prove rectifiability and local finiteness of measure of the singular set for various classes of minimal submanifolds, including for the first time cases where the tangent cones may have varying type and where there is no topological obstruction to perturbing away the singularities. For example we establish here (in Corollary 1 of §1) the (n 2)-rectifiability for the interior singular set of any mod 2 minimizing current of arbitrary codimension, and local finiteness for the (n 2)-dimensional measure of the "top-dimensional" part of this singular set. Perhaps more importantly, the work here produces some analytic machinery which seems to hold promise for further developments. The key result of the present work is a technical decay lemma, Lemma 1 of §1. This lemma says roughly that, if M c R" lies in a suitable "multiplicity one class" J( of /i-dimensional minimal submanifolds c R (described precisely in §1), and if M is close to C in a ball B in a suitable L sense (made precise in Lemma 1), where C = Co x R m is a cylindrical cone having cross section Co satisfying an "integrability condition" (see tt of § 1)> then either there is a significant "gap" in the part of the singular set consisting of points X e B where the density ®m(X) of M at X > the density θ c (0) of C at 0, or else there is a cylindrical
GSK-3 (cid:68) Limits Ischemic Injury, Cardiac Rupture, Post- Myocardial Infarction Remodeling and Death

: Background - The molecular pathways that regulate the extent of ischemic injury and post-MI remodeling are not well understood. We recently demonstrated that GSK-3 (cid:68) is critical to the heart’s response to pressure overload. However, the role, if any, of GSK-3 (cid:68) in regulating ischemic injury and its consequences is not known. Methods and Results - MI was induced in wild-type (WT) vs. GSK-3 (cid:68) (-/-) (KO) littermates by LAD ligation. Pre-MI, WT and KO hearts had comparable chamber dimensions and ventricular function, but as early as one week post-MI, KO mice had significantly more LV dilatation and dysfunction than WT. KO mice also had increased mortality during the first 10 days post-MI (43% vs 22%; P=0.04), and post-mortem examination confirmed cardiac rupture as the cause of most of the deaths. In the mice that survived the first 10 d, LV dilatation and dysfunction remained worse in the KO throughout the study (8 wks). Hypertrophy, fibrosis, and heart failure were all increased in the KO. Given the early deaths due to rupture and the significant reduction in LV function evident as early as 1 wk post-MI, we examined infarct size following a 48h coronary artery ligation and found it to be increased in the KO. This was accompanied by increased apoptosis in the border zone of the MI. This increased susceptibility to ischemic injury-induced apoptosis was also seen in cardiomyocytes isolated from the KO that were exposed to hypoxia. Finally, Bax translocation to the mitochondria and cytochrome C release into the cytosol were increased in the KO. Conclusion - GSK-3 (cid:68) confers resistance ischemic injury at least in part via limiting apoptosis. Loss of GSK-3 (cid:302) promotes ischemic injury, increases risk of cardiac rupture, accentuates post-MI remodeling and LV dysfunction, and increases the progression to heart failure. These findings in striking contrast to multiple prior reports in which deletion or inhibition of GSK-3 (cid:69) is protective. infarct size was determined by TTC staining. Infarct size was quantified and expressed as a percentage of the total area of the LV myocardium. Differences between groups were determined by unpaired t-test and results are expressed as means ± SEM. A P value of < 0.05 or less was considered to denote statistical significance.
Effects of Lactobacillus plantarum on intestinal integrity and immune responses of chickens infected with Clostridium perfringens under the free-range or the speci�c pathogen free environment

Background Necrotic enteritis, which is caused by Clostridium perfringens, has resulted in more than $2 billion losses in the poultry industry every year. Due to the ban of antibiotics in feed industry, alternatives like environment improvement and probiotics have been found to be effective as well. In our study, we aim to explore the protective effect of Lactobacillus plantarum on CP infected chickens in two environments. Results The results showed that the Clostridium perfringens administration led to visible and histomorphological gut lesions. In the speci�c pathogen free or free-range system environment, dietary supplementation with LP obvious increased the ratio of intestinal villus height to crypt depth and the expression of MUC2 mRNA in ileum mucosa, then reduced the mRNA expression level of TNF-α gene in the ileum mucosa. LP treatment signi�cantly reduced the contents of total protein, total superoxide dismutase and glutamic oxaloacetic transaminase in serum of the chickens. Conclusions The speci�c pathogen free environment contributed to the recovery of pre-in�ammation of the chickens, and free-range system environment contributed to the repair of damage in the later stages of chicken in�ammation. Supplementation of LP in FRS environment was more conducive to the recovery of CP infected in chickens. The purpose of our experiment is to study the effect of LP on immune function of chickens after infected with CP in different environments. We aim to explore whether different feeding methods and probiotics can alleviate the adverse effects of necrotizing enteritis by CP on chickens. We also aim to provide effective measures and a theoretical basis to aid in reduction of losses from NE in the poultry industry.
NONCOMMUTATIVE MIRROR

In 2013, Abouzaid, Auroux, Eﬁmov, Katzarkov and Orlov showed that the wrapped Fukaya categories of punctured spheres and ﬁnite unbranched covers of punctured spheres are derived equivalent to the categories of singularities of a superpotential on certain crepant resolutions of toric 3 dimensional singularities. We generalize this result to other punctured Riemann surfaces and reformulate it in terms of certain noncommutative algebras coming from dimer models. In particular, given any consistent dimer model we can look at a subcategory of noncommutative matrix factorizations and show that this category is A ∞ -isomorphic to a subcategory of the wrapped Fukaya category of a punctured Riemann surface. The connection between the dimer model and the punctured Riemann surface then has a nice interpretation in terms of a duality on dimer models.
Biochemical Assessment of the Effects of Aqueous Stem Bark Extract of Anogeissus leiocarpus on Wistar Strain Rats

Aqueous stem bark extract of Anogeissus leiocarpus was phytochemically screened indicating the presence of alkaloids, tannins, anthraquinones, saponins and phenols. Antimicrobial activity of the aqueous extract using Escherichia coli, Streptococcus pneumoniae, Staphylococcus aureus and Klebsiella pneumoniae as test organisms showed varying zones of inhibition with 10 mm zone of inhibition exhibited by Staphylococcus aureus and Escherichia coli respectively. Minimum Inhibitory Concentration (MIC) and Minimum Bactericidal Concentration of extract were 16 µg/ml and 32 µg/ml respectively. Treatment of experimental animals with the aqueous stem bark extract for a period of six weeks and subsequent assessment of its effect biochemically revealed that alanine aminotransferase (ALT), aspartate aminotransferase (AST), acid phosphatase (ACP), and lactate dehydrogenase (LDH) levels were significantly higher than normal suggesting certain degree of liver injury. Glucose, cholesterol, total and direct bilirubin as well as total protein levels were significantly higher than normal values with to treated with 500mg/kg body weight suggesting a dose dependent effect of the extract on the animals. Urea and creatinine levels were slightly lower than normal. Overall, the result of this study showed that the effect of the extract was more pronounced on the liver than the kidney as depicted by the photomicrographs.
H-2-fuelled microbial metabolism in Opalinus Clay. Applied Clay

In Switzerland, the Opalinus Clay formation is considered the most likely host rock for a deep geological re- pository for nuclear waste. In deep geological repositories, H 2 is expected to be the most abundant gas formed from the degradation of waste and from metal corrosion. The microbial community present in Opalinus Clay is capable of utilizing H 2 as an electron donor and sulfate as an electron acceptor to produce hydrogen sul ﬁ de. This could be problematic due to its potential for increasing the corrosion of metal waste canisters containing radioactive waste, however, the possible impacts of these processes on the clay rock have not been fully investigated. In this study, a series of microcosm experiments were set-up containing Opalinus Clay and porewater from the Mont Terri underground research laboratory (Switzerland) as an inoculum. Uninoculated microcosms were established to investigate abiotic processes. In the presence of clay, a higher aqueous sulfate concentration was detected than in those with only porewater present and this concentration decreased over time in the inoculated experiments. However, there was no evidence of hydrogen sul ﬁ de production in the aqueous phase. In all experiments with clay, there was an increase in aqueous Fe 2+ concentrations with the highest concentrations found in uninoculated experiments. The sulfur speciation of the Opalinus Clay was analysed and the results of the inoculated sample suggested that hydrogen sul ﬁ de reacted with Fe 2+ , precipitating iron sul ﬁ de minerals. After the incubation period, the mi- crobial community was dominated by the sulfate-reducing Desulfobulbaceae family. The study suggests that H 2 -fuelled, microbially-mediated sulfate reduction can a ﬀ ect the mineral composition within the Opalinus Clay due to the precipitation of iron sul ﬁ de minerals. These precipitation reactions may enhance the long-term integrity of the repository by removing corrosive hydrogen sul ﬁ de from solution when su ﬃ cient Fe 2+ is available and so protecting the canisters containing the nuclear waste.
University of Birmingham Alleviation and Sanctions in Social Dilemma Games

: This paper reports an experiment which compares behaviour in two punishment regimes: (i) a standard public goods game with punishment in which subjects are given the opportunity to punish other group members (democratic punishment regime) and (ii) a public goods game environment where all group members exogenously experience an automatic reduction of their income (irrespective of their behaviour) and are given the opportunity to alleviate the automatic penalty (undemocratic punishment regime). We employ a within-subjects design where subjects experience both environments and control for order effects by alternating their sequence. Our findings indicate that average contributions and earnings in the undemocratic punishment environment are significantly lower relative to the standard public goods game with punishment. We also observe that in the undemocratic environment average contributions decay over time only when subjects have experienced the standard public goods game with punishment. As a result, alleviation is significantly less when subjects have experienced the standard public goods game with punishment compared to when they do not have such experience. However, the assignment of punishment is robust irrespective of the order in which the games are played.
Targeting online communities to maximise information diffusion

In recent years, many companies have started to utilise online social communities as a means of communicating with and targeting their employees and customers. Such online communities include discussion fora which are driven by the conversational activity of users. For example, users may respond to certain ideas as a result of the influence of their neighbours in the underlying social network. We analyse such influence to target communities rather than individual actors because information is usually shared with the community and not just with individual users. In this paper, we study information diffusion across communities and argue that some communities are more suitable for maximising spread than others. In order to achieve this, we develop a set of novel measures for cross-community influence, and show that it outperforms other targeting strategies on 51 weeks of data of the largest Irish online discussion system, Boards.ie.
Lagrangian intersection floer theory : anomaly and obstruction

Part I Introduction Review: Floer cohomology The $A_\infty$ algebra associated to a Lagrangian submanifold Homotopy equivalence of $A_\infty$ algebras Homotopy equivalence of $A_\infty$ bimodules Spectral sequences Part II Transversality Orientation Appendices Bibliography Index.
Fault-Tolerant Cloud Services Supervision system that ensures the safety of running processes

Nowadays, due to the convenience of deployment, ease to scale up and cost savings, the application of cloud computing systems has spread throughout the factory, commercial and individual users. However, fault tolerance in cloud computing systems has always been an important topic due to the high failure rate caused by the sheer size of cloud computing systems. This thesis presents an implementation of a fault-tolerant system called "supervision system" as a fault-tolerant mechanism for cloud computing systems. We ﬁrst proposed a supervisor-worker relation: a supervisor node is responsible for monitoring its child (worker or another supervisor), and the worker node which does the actual work periodically reset a timer in its supervisor. If the corresponding timer overﬂows, the supervisor marks it as a failure, and try to restore or restart a new instance of it. The system also supports a multi-watchdog mode, which uses more ﬁne-grained watchdogs that group the threads in the worker and applies diﬀerent strategies to the groups. Besides the local system, we also implemented a remote supervision system to ensure the safety of local root supervisors, by periodically saving its running state and uploading the image ﬁles to its remote supervisor. If an overﬂow occurs, the remote supervisor re-motely calls the restore function on the local machine. Then the restore function gets the most recent image ﬁles from the remote supervisor and restores itself. In addition to the implementation details of the system, we designed several test cases and tested the speed of each system part. According to the results, we can conclude that the system works as we expected.
ASTRID SFR PROTOTYPE STEAM GENERATOR DESIGN EVOLUTION RELATED TO SAFETY AND COST ISSUES

One option of the ASTRID prototype power conversion systems (PCS) is the steam cycle based on the Rankine cycle, which has been implemented in the past in France in the Phénix and Superphénix Sodium Fast Reactors, and is also being implemented in other SFRs in construction in the world (Russia, India, China). This paper is placed in the context of the Rankine cycle ameliorations and in particular on the Steam Generator (SG), developed by AREVA, from the safety point of view without significant penalty on cost. Therefore significant progresses are awaited to reduce sodium/water reaction accident scenario impact as much by prevention as by mitigation. Following the ICAPP 2010 paper (1), ASTRID project performed a thorough comparison of SG designs with regard to these safety requirements but also including increased sodium/water segregation (inlet and outlet of sodium implemented at the bottom of the SG), material issues and cost considerations. The design is based today on a monolithic SG with alloy 800 helical tubes but equipped with geometric specificities necessary for allowing the use of a single component per secondary loop.
Evaluación y comparación de sistemas de planificación de navegación de robots en entornos dinámicos

In this paper we present a unified localization technique for indoor-outdoor environments that allows a seamless transition between a mapped zone using laser rangefinder on-board sensors and a GPS based localization zone. Different situations are detected during the indooroutdoor transitions, in which the sensors used change and the localization estimator has to manage them properly for a continuous localization. The quality in the GPS measurements and the zone where the robot is localized are used to determine the best instant for switching the localization parameters for adapting to the situations.
Open Ceramics A review of additive manufacturing of ceramics by powder bed selective laser processing (sintering / melting): Calcium phosphate, silicon carbide, zirconia, alumina, and their composites

This review offers an overview on the Jatest advances in the powder bed selective Jaser processing, lmown as selective Jaser sintering/melting, of calcium phosphate, silicon carl>ide, zirconia, alumina, and some of their composites. A number of published studies between 1991 and August 2020 was collected, analyzed and an in­ clusive state of the art was created for this review. The paper focuses on the process description, feedstock criteria and process parameters and strategy. A comparison is made between direct and indirect powder bed selective Jaser processing of each ceramic, regarding the present achievements, limitations and solutions. In addition, technical aspects and challenges about how to address criteria, Powder Bed Selective Laser Processing (PBSLP).