Miracle-dz/UniFAR-FTUs huggingface dataset:
Universality of the tachyon potential

Using string field theory, we argue that the tachyon potential on a D-brane in bosonic string theory in arbitrary background has a universal form, independent of the boundary conformal field theory describing the brane. This implies that if at an extremum of the tachyon potential the total energy of the brane vanishes in a particular background, then it vanishes in any other background. Similar result holds for the tachyon potential of the D-brane anti-D-brane system and the non-BPS D-brane of type II string theory.
Long-Term Effects of Self-Control on Alcohol Use and Sexual Behavior among Urban Minority Young Women

High risk alcohol use and sexual behaviors peak in young adulthood and often occur in the same individuals. Alcohol use has been found to impair decision-making and contribute to high risk sexual activity. However, the association between alcohol use and risky sexual behavior may also reflect enduring individual differences in risk taking, sociability, self-control, and related variables. Both behaviors can serve similar functions related to recreation, interpersonal connection, and the pursuit of excitement or pleasure. The present study examined the extent to which high risk drinking and sexual behavior clustered together in a sample of urban minority young adult women, a demographic group at elevated risk for negative outcomes related to sexual health. We tested whether psychosocial functioning measured at the beginning of high school predicted classes of risk behaviors when girls were tracked longitudinally into young adulthood. Latent class analysis indicated three distinct profiles based on high risk drinking and sexual behavior (i.e., multiple sex partners) in young adulthood. The largest class (73% of the sample) reported low levels of risky drinking and sexual behavior. The next largest class (19%) reported high risk drinking and low risk sexual behavior, and the smallest class (8%) reported high levels of both behaviors. Compared to women from other racial/ethnic groups, black women were more likely to be categorized in the high risk drinking/low risk sex class. Multinomial logistic regression indicated that self-control in adolescence had a broad and enduring protective effect on risk behaviors eight years later and was associated with a greater probability of being in the low risk drinking/low risk sex class. Findings are discussed in terms of understanding the phenotypic expressions of risk behavior as they relate to early psychosocial development and the long-term protective function of self-control in reducing high risk drinking and sexual behaviors.
Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm

MOTIVATION The identification of regulatory control regions within genomes is a major challenge. Studies have demonstrated that regulating regions can be described as locally dense clusters or modules of cis-acting transcription factor binding sites (TFBS). For well-described biological contexts, it is possible to train predictive algorithms to discern novel modules in genome sequences. However, utility of module detection methods has been severely limited by insufficient training data. For only a few tissues can one obtain sufficient numbers of literature-derived regulatory modules. RESULTS We present a novel method, MSCAN, that circumvents the training data problem by measuring the statistical significance of any non-overlapping combination of TFBS in a window. Given a set of transcription factor binding profiles, a significance threshold, and a genomic sequence, MSCAN returns putative regulatory regions. We assess performance on two curated collections of regulatory regions; one each for tissue-specific expression in liver and skeletal muscle cells. The efficiency of MSCAN allows for predictive screens of entire genomes.
On the Duration and Intensity of Competitions in Nonlinear Pólya Urn Processes with Fitness

Cumulative advantage (CA) refers to the notion that accumulated resources foster the accumulation of further resources in competitions, a phenomenon that has been empirically observed in various contexts. The oldest and arguably simplest mathematical model that embodies this general principle is the Pólya urn process, which finds applications in a myriad of problems. The original model captures the dynamics of competitions between two equally fit agents under linear CA effects, which can be readily generalized to incorporate different fitnesses and nonlinear CA effects. We study two statistics of competitions under the generalized model, namely duration (i.e., time of the last tie) and intensity (i.e., number of ties). We give rigorous mathematical characterizations of the tail distributions of both duration and intensity under the various regimes for fitness and nonlinearity, which reveal very interesting behaviors. For example, fitness superiority induces much shorter competitions in the sublinear regime while much longer competitions in the superlinear regime. Our findings can shed light on the application of Pólya urn processes in more general contexts where fitness and nonlinearity may be present.
A fast algorithm for energy-aware mapping of cores onto WK-recursive NoC under performance constraints

Network on Chip (NoC) has been proposed as a new paradigm for designing System on Chip which supports high degree of scalability and reusability. Mapping an application, which is described by a parameterized task graph, onto NoC is a key research problem in NoC design. In this paper, we first propose an energy-aware cores mapping approach on WK-recursive NoC, and then present a fast clustering-based scheduling algorithm that maps the cores onto WK-recursive NoC architecture under bandwidth constraints to minimize the total communication energy. Experimental results show that the proposed algorithm is able to handle large task graphs and provide near optimal cores mapping in a few seconds on a PC platform.
Quotient Complexity of Bifix-, Factor-, and Subword-free Regular Languages

A language L is prefix-free if whenever words u and v are in L and u is a prefix of v, then u = v. Suffix-, factor-, and subword-free languages are defined si milarly, where by “subword” we mean “subsequence”, and a language is bifix-free if it is both prefix- and suffix-free. These languages have important appl ications in coding theory. The quotient complexity of an operation on regular languages is defined as the number of left quotients of the result of the operation as a fu nction of the numbers of left quotients of the operands. The quotient complexity of a regular language is the same as its state complexity, which is the number of states in the complete minimal deterministic finite automaton accepting the language. The state/quotient complexity of operations in the classes of prefix- and suffix-free languages has been studied before. Here, we study the complexity of operations in the classes of bifix-, factor-, and subword-free languages. We find tight upper bounds on the quotient complexity of intersection, union, differe nce, symmetric difference, concatenation, star, and reversal in these three classes of languages.
XRCC3 C18067T Polymorphism Contributes a Decreased Risk to Both Basal Cell Carcinoma and Squamous Cell Carcinoma: Evidence from a Meta-Analysis

Background The X-ray repair cross-complementing group 3 (XRCC3) in homologous recombination repair (HRR) pathway plays a very important role in DNA double-strand break repair (DSBR). Variations in the XRCC3 gene might lead to altered protein structure or function which may change DSBR efficiency and result in cancer. The XRCC3 C18067T polymorphism has been reported to be associated with skin cancer susceptibility, yet the results of these previous results have been inconsistent or controversial. To derive a more precise estimation of the association, we conducted a meta-analysis. Methods The quality of the studies was assessed according to a predefined scale. The association between the XRCC3 C18067T polymorphism and skin cancer risk was assessed by odds ratios (ORs) together with their 95% confidence intervals (CIs). Results Overall, no significant association was observed between XRCC3 C18067T polymorphism and skin cancer risk in any genetic model. Stratified analyses according to tumor type, significant association was found in the relationship between XRCC3 C18067T polymorphism and nonmelanoma skin cancer risk (homozygote comparison TT versus CC: OR = 0.74, 95%CI = 0.61–0.90, P = 0.003; recessive model TT versus TC/CC: OR = 0.81, 95%CI = 0.68–0.95, P = 0.01). Furthermore, significant association was also observed in XRCC3 C18067T polymorphism with both basal cell carcinoma risk (homozygote comparison TT versus CC: OR = 0.70, 95%CI = 0.53–0.92, P = 0.011; recessive model TT versus. TC/CC: OR = 0.74, 95%CI = 0.60–0.92, P = 0.007) and squamous cell carcinoma risk (heterozygote comparison TT versus .CC: OR = 0.81, 95%CI = 0.67–0.99, P = 0.04; dominant model TT/TC versus .CC: OR = 0.81, 95%CI = 0.68–0.98, P = 0.029). Conclusion The present meta-analysis demonstrates that XRCC3 C18067T polymorphism was not associated with risk of cutaneous melanoma but contributed a decreased risk to both basal cell carcinoma and squamous cell carcinoma.
Multisited Design: An Analytical Lens for Transnational HCI

In this article, we present and articulate the analytical lens of multisited design to illuminate transnational connections between sites of design, and aid in the translation of knowledge between designers and ethnographers. This position emerges from the authors' respective engagements in ethnographic research and design engagements with a slum community center in Bangkok, Thailand, and with “makers” and entrepreneurs in Shanghai and Shenzhen, China. In both cases, we found design to be a site of engagement with and interpretation of wider connections between different locales, and between local and global networks. We identify four crucial aspects of design for the purposes of this discussion: It is normative, concerned with function and the attainment of goals; it is practical, and oriented toward constraints and opportunities; it frames and defines problems concurrently with solving them; and it takes a systems approach that accounts for the broad context of the design situation. Approaching and participating in these aspects of design evolved in concert with our ethnographic fieldwork and analysis, allowing us to take design seriously without sacrificing an ethnographic commitment to nuanced description. We conclude by touching on the epistemological similarities, rather than conflicts, between ethnography and design.
ExConQuer Framework - Softening RDF Data to Enhance Linked Data Reuse

Efforts towards the wider adoption of Linked Open Data, including the implementation of Linked Data principles and the consumption of Linked Data, are evident in the existing literature and available tools. Yet, these efforts rarely cater for stakeholders who are not familiar with RDF or SPARQL. Hence, we propose the ExConQuer Framework, which facilitates the publication and consumption of RDF in a variety of generic formats. In this manner, any stakeholder can export and work with RDF data in the formats they are most accustomed with, thus lowering the entry barrier to the use of semantic technologies, and possibly enabling the exploitation of Linked Open Data to its full potential.
Capturing nuclear sequence-specific DNA-binding proteins by using simian virus 40-derived minichromosomes

We have used recombinant simian virus 40 (SV40) minichromosomes to retrieve sequence-specific DNA-binding proteins derived from the cell nucleus of COS-7 cells. We showed that the transcription factors AP-1 and Sp1 are stably bound to the SV40 DNA late in viral infection. Under similar conditions, minichromosomes carrying the rat insulin (rINS1) enhancer, which is under negative regulation in COS-7 cells, bound two proteins which mapped to distinct regions of the rINS1 enhancer. The SV40 P element competed for one of these proteins which bound to the region from -198 to -230. This factor may be related to AP-1. The other factor selectively bound a regulatory element in the region from -92 to -124 of the insulin enhancer. These proteins may play a role in regulating the rINS1 enhancer function.
Heme Oxygenase Activity Correlates with Serum Indices of Iron Homeostasis in Healthy Nonsmokers

Heme oxygenase (HO) catalyzes the breakdown of heme to carbon monoxide, iron, and biliverdin. While the use of genetically altered animal models in investigation has established distinct associations between HO activity and systemic iron availability, studies have not yet confirmed such participation of HO in iron homeostasis of humans. Carbon monoxide produced through HO activity will bind to hemoglobin in circulating erythrocytes, and therefore, blood carboxyhemoglobin (COHb) can be used as an index of HO activity. Using the second National Health and Nutrition Examination Survey, we tested the postulate that HO activity correlates with serum indices of iron homeostasis in healthy nonsmokers. The investigation included 844 lifetime nonsmokers (586 females) 18 years of age and older in the study population. Significant correlations were demonstrated between COHb and several indices of iron homeostasis including serum levels of both ferritin and iron and percentage iron saturation of transferrin. There was no significant association between COHb and hemoglobin, the largest repository of heme in the human body, which functions as the substrate for HO. We conclude that HO activity contributes to human iron homeostasis with significant correlations between COHb and serum ferritin and iron levels and percentage iron saturation of transferrin.
Supporting Scientific SE Process Improvement

The increasing complexity of scientific software can result in significant impacts on the research itself. In traditional software development projects, teams adopt historical best practices into their development processes to mitigate the risk of such problems. In contrast, the gap that has formed between the traditional and scientific software communities leaves scientists to rely on only their own experience when facing software process improvement (SPI) decisions. Rather than expect scientists to become software engineering (SE) experts or the SE community to learn all of the intricacies involved in scientific software development projects, we seek a middle ground. The Scientific Software Process Improvement Framework (SciSPIF) will allow scientists to self-drive their own SPI efforts while leveraging the collective experiences of their peers and linking their concerns to established SE best practices. This proposal outlines the known challenges of scientific software development, relevant concepts from traditional SE research, and our planned methodology for collecting the data required to construct SciSPIF while staying grounded in the actual goals and concerns of the scientists.
Using swamps to improve optimal pathfinding

We address the problem of quickly finding shortest paths in known graphs. We propose a method that relies on identifying areas that tend to be searched needlessly (areas we call swamps), and exploits this knowledge to improve search. The method requires relatively little memory, and reduces search cost drastically, while still finding optimal paths. Our method is independent of the heuristics used in the search, and of the search algorithm. We present experimental results that support our claims, and provide an anytime algorithm for the pre-processing stage that identifies swamps.
Toxicity evaluation of biodegradable chitosan nanoparticles using a zebrafish embryo model

Background Although there are a number of reports regarding the toxicity evaluation of inorganic nanoparticles, knowledge on biodegradable nanomaterials, which have always been considered safe, is still limited. For example, the toxicity of chitosan nanoparticles, one of the most widely used drug/gene delivery vehicles, is largely unknown. In the present study, the zebrafish model was used for a safety evaluation of this nanocarrier. Methods Chitosan nanoparticles with two particle sizes were prepared by ionic cross-linking of chitosan with sodium tripolyphosphate. Chitosan nanoparticles of different concentrations were incubated with zebrafish embryos, and ZnO nanoparticles were used as the positive control. Results Embryo exposure to chitosan nanoparticles and ZnO nanoparticles resulted in a decreased hatching rate and increased mortality, which was concentration-dependent. Chitosan nanoparticles at a size of 200 nm caused malformations, including a bent spine, pericardial edema, and an opaque yolk in zebrafish embryos. Furthermore, embryos exposed to chitosan nanoparticles showed an increased rate of cell death, high expression of reactive oxygen species, as well as overexpression of heat shock protein 70, indicating that chitosan nanoparticles can cause physiological stress in zebrafish. The results also suggest that the toxicity of biodegradable nanocarriers such as chitosan nanoparticles must be addressed, especially considering the in vivo distribution of these nanoscaled particles. Conclusion Our results add new insights into the potential toxicity of nanoparticles produced by biodegradable materials, and may help us to understand better the nanotoxicity of drug delivery carriers.
Generic Zero-Knowledge and Multivariate Quadratic Systems

Zero-knowledge proofs are a core building block for a broad range of cryptographic protocols. This paper introduces a generic zeroknowledge proof system capable of proving the correct computation of any circuit. Our protocol draws on recent advancements in multiparty computation and its security relies only on the underlying commitment scheme. Furthermore, we optimize this protocol for use with multivariate quadratic systems of polynomials, leading to provably secure signatures from multivariate quadratic systems, with keys that scale linearly and signatures that scale quadratically with the security parameter.
Crystalline damage growth during martensitic phase transformations

A thermomechanical model is developed within a large deformation setting in order to simulate the interactions between martensitic phase transformations and crystalline damage growth at the austenitic grain level. Subgrain information is included in the model via the crystallographic theory of martensitic transformations. The damage and transformation characteristics are dependent of the specific martensitic transformation systems activated during a loading process, which makes the model strongly anisotropic. The state of transformation for the individual transformation systems is represented by the corresponding volume fractions. The state of damage in the austenite and in the martensitic transformation systems is reflected by the corresponding damaged volume fractions. The thermodynamical forces energetically conjugated to the rate of volume fraction and the rate of damaged volume fraction are the driving forces for transformation and crystalline damage, respectively. The expressions for these driving forces follow after constructing the specific form of the Helmholtz energy for a phase-changing, damaging material. The model is used to analyze several three-dimensional boundary value problems that are representative of microstructures appearing in multiphase carbon steels containing retained austenite. The analyses show that the incorporation of damage in the model effectively limits the elastic stresses developing in the martensitic product phase, where the maximum value of the stress strongly depends on the toughness of the martensite. Furthermore, in an aggregate of randomly oriented grains of retained austenite embedded in a ferritic matrix the generation of crystalline damage delays the phase transformation process, and may arrest it if the martensitic product phase is sufficiently brittle. The response characteristics computed with the phase-changing damage model are confirmed by experimental results.
Venous thromboembolism in the hematologic malignancies

Purpose of review This review summarizes the current knowledge of the epidemiology, prophylaxis, and treatment of venous thromboembolism (VTE) in patients with lymphoma, multiple myeloma or acute leukemia. Recent findings Hematologic malignancies are associated with a high risk of thrombotic complications. The incidence of these events is greatly variable and is influenced by many factors, including the type and the stage of disease, antitumor therapies, and the use of central venous device (CVD). Epidemiological data allow an estimate of the incidence of VTE in acute leukemia, lymphomas, and multiple myeloma. The effect of chemotherapy on the incidence of thrombosis is particularly evident in acute leukemia as it causes the exacerbation of the clotting/bleeding syndrome typical of this disease. The role of chemotherapy is also relevant in lymphoma, and in multiple myeloma, in which the use of immunomodulating agents, in combination with chemotherapy and steroids significantly increases the risk of VTE. Summary Thrombotic complications have a significant impact on morbidity and mortality of hematological cancer patients, therefore, in this setting, the issue of thromboprophylaxis to prevent VTE is important. However, no clear recommendation in these conditions is available, with the exception of multiple myeloma. Large prospective randomized clinical trials are needed to establish the best practice for prevention and treatment of VTE in these types of malignant diseases.
Overproduction of a selenocysteine‐containing polypeptide in Escherichia coli: the fdhF gene product

The fdhF gene of Escherichia coli codes for the selenocysteine‐including protein subunit of formate dehydrogenase H. The protein subunit consists of 715 amino acid residues containing a single selenocysteine residue at position 140 which is encoded by a UGA codon. The decoding of this opal termination codon occurs under anaerobic growth conditions by means of a specific tRNA, i.e. the selC gene product. The ability of E. coli cells to overproduce a seleno‐polypeptide was examined using the fdhF gene as a model system. Surprisingly, E. coli was able to synthesize the fdhF gene product at the level of approximately 12% of the total cellular protein. This was achieved by cloning fdhF in a multicopy plasmid together with a synthetic selC gene under the Ipp promoter. FdhF production was absolutely dependent upon the addition of selenium to the culture medium and was almost completely blocked in the presence of oxygen. The product was specifically labelled with 75Se, proving that it consisted of a selenoprotein. The product was purified to homogeneity and shown to exhibit the catalytic properties characteristic of formate dehydrogenase H.