nils-herrmann/clean_scirepeval huggingface dataset:
Temperature effect on proliferation and differentiation of satellite cells from turkeys with different growth rates.
Venue: Poultry science

Poultry selected for growth have an inefficient thermoregulatory system and are more sensitive to temperature extremes. Satellite cells are precursors to skeletal muscle and mediate all posthatch muscle growth. Their physiological functions are affected by temperature. The objective of the current study was to determine how temperature affects satellite cells isolated from the pectoralis major (p. major) muscle (breast muscle) of turkeys selected for increased 16 wk body weight (F line) in comparison to a randombred control line (RBC2) from which the F line originated. Pectoralis major muscle satellite cells were thermally challenged by culturing between 33degC and 43degC to analyze the effects of cold and heat on proliferation and differentiation as compared to control temperature of 38degC. Expression levels of myogenic regulatory factors: myogenic differentiation factor 1 (MYOD1) and myogenin (MYOG) were quantified by quantitative polymerase chain reaction (qPCR) At all sampling times, proliferation increased at a linear rate across temperature in both the RBC2 and F lines. Differentiation also increased at a linear rate across temperature from 33 to 41degC at all sampling times in both the F and RBC2 lines. Satellite cells isolated from F line turkeys were more sensitive to both hot and cold temperatures as proliferation and differentiation increased to a greater extent across temperature (33 to 43degC) when compared with the RBC2 line. Expression of MYOD1 and MYOG increased as temperatures increased from 33 to 41degC at all sampling times in both the F and RBC2 lines. These results demonstrate that satellite cell function is sensitive to both cold and hot temperatures and p. major muscle satellite cells from F line turkeys are more sensitive to temperature extremes than RBC2 satellite cells.
A NoSQL Data Model for Scalable Big Data Workflow Execution
Venue: 2016 IEEE International Congress on Big Data (BigData Congress)

While big data workflows haven been proposed recently as the next generation data centric workflow paradigm to process and analyze data of ever increasing in scale, complexity, and rate of acquisition, a scalable distributed data model is still missing that abstracts and automates data distribution, parallelism, and scalable processing. In the meanwhile, although NoSQL has emerged as a new category of data models, they are optimized for storing and querying of large datasets, not for ad hoc data analysis where data placement and data movement are necessary for optimized workflow execution. In this paper, we propose a NoSQL data model that: 1) supports high performance MapReduce style workflows that automate data partitioning and data parallelism execution. In contrast to the traditional MapReduce framework, our MapReduce style workflows are fully composable with other workflows enabling dataflow applications with a richer structure, 2) automates virtual machine provisioning and deprovisioning on demand according to the sizes of input datasets, 3) enables a flexible framework for workflow executors that take advantage of the proposed NoSQL data model to improve the performance of workflow execution. Our case studies and experiments show the competitive advantages of our proposed data model. The proposed NoSQL data model is implemented in a new release of DATAVIEW, one of the most usable big data workflow systems in the community.
Investigating Road Safety Management Systems in the European Countries: Patterns and Particularities

A road safety management (RSM) system can be defined as "a complex institutional structure that involves cooperating and interacting bodies which support the tasks and processes necessary for the prevention and reduction of road traffic injuries" RSM should promote the road safety progress of the country. However, the details of this relationship are generally lacking. This study explored the RSM systems in European countries based on the information collected through interviews with experts and officials, in each country, and using a "good practice" criteria questionnaire. The dataset included 14 countries with fifty items related to five RSM areas: institutional organization; policy formulation and adoption; policy implementation and funding; monitoring and evaluation; scientific support, information and capacity building. Cluster analyses and correlations were used to identify country groups with similar RSM components, to recognize typical RSM structures if available and to examine the relationship between RSM and road safety performance of the countries. The findings showed that all the countries are different when RSM systems are considered as a whole, making it impossible to identify typical RSM structures or a single best working model at a national level. However, it is possible to compare countries when the RSM areas are considered separately, where the clusters of countries recognized by the study present the patterns common for those European countries. Across the analyses, a number of countries with a consistently higher and lower availability of the RSM components were identified, enabling a final countries' ranking into a number of groups. The latter actually reflects the level of RSM in the country, in terms of its correspondence to the "good practice" criteria. A further analysis indicated a positive correlation between the higher level of the RSM system and better safety performance of the countries.
Potentially \text{GL}_2$ type Galois representations associated to noncongruence modular forms

In this paper, we consider Galois representations of the absolute Galois group \text{Gal}\overline \mathbb Q}\mathbb Q) attached to modular forms for noncongruence subgroups of \text{SL}_2(\mathbb Z) When the underlying modular curves have a model over \mathbb Q$ these representations are constructed by Scholl and are referred to as Scholl representations, which form a large class of motivic Galois representations. In particular, by a result of Belyi, Scholl representations include the Galois actions on the Jacobian varieties of algebraic curves defined over \mathbb Q$ As Scholl representations are motivic, they are expected to correspond to automorphic representations according to the Langlands philosophy. Using recent developments in the automorphy lifting theorem, we obtain various automphy and potential automorphy results for potentially \text{GL}_2$ type Galois representations associated to noncongruence modular forms. Our results are applied to various kinds of examples. Especially, we obtain potential automorphy results for Galois representations attached to an infinite family of spaces of weight 3 noncongruence cusp forms of arbitrarily large dimensions.
Condensin and Hmo1 Mediate a Starvation Induced Transcriptional Position Effect within the Ribosomal DNA Array.
Venue: Cell reports

DNA arrays are important structural features of eukaryotic genomes that are often heterochromatinized to suppress repeat instability. It is unclear, however, whether all repeats within an array are equally subject to heterochromatin formation and gene silencing. Here, we show that in starving Saccharomyces cerevisiae, silencing of reporter genes within the ribosomal DNA (rDNA) array is less pronounced in outer repeats compared with inner repeats. This position effect is linked to the starvation induced contraction of the nucleolus. We show that the chromatin regulators condensin and Hmo1 redistribute within the rDNA upon starvation; that Hmo1, like condensin, is required for nucleolar contraction; and that the position effect partially depends on both proteins. Starvation induced nucleolar contraction and differential desilencing of the outer rDNA repeats may provide a mechanism to activate rDNA encoded RNAPII transcription units without causing general rDNA instability.
Influence of first position effect on emotional response

Previous research has demonstrated that overall acceptability of first tasted product is overvalued. This paper aims to analyse first position effect on emotional response, carrying out two separate studies with different products (chocolate and beer) emotional vocabularies (EsSense profile(r) and consumer led lexicon) and types of scales (5 point scale and line scale) Our results demonstrate that first position effect is ubiquitous, although it does not affect all emotional terms. An approach to control this effect is also presented. Sensory researchers need to be aware of the influence of first position effect on emotional response elicited by food and beverage consumption.
Position effect variegation revisited: HUSHing up heterochromatin in human cells
Venue: BioEssays news and reviews in molecular, cellular and developmental biology

Much of what we understand about heterochromatin formation in mammals has been extrapolated from forward genetic screens for modifiers of position effect variegation (PEV) in the fruit fly Drosophila melanogaster. The recent identification of the HUSH (Human Silencing Hub) complex suggests that more recent evolutionary developments contribute to the mechanisms underlying PEV in human cells. Although HUSH mediated repression also involves heterochromatin spreading through the reading and writing of the repressive H3K9me3 histone modification, clear orthologues of HUSH subunits are not found in Drosophila but are conserved in vertebrates. Here we compare the insights into the mechanisms of PEV derived from genetic screens in the fly, the mouse and in human cells, review what is currently known about the HUSH complex and discuss the implications of HUSH mediated silencing for viral latency. Future studies will provide mechanistic insight into HUSH complex function and reveal the relationship between HUSH and other epigenetic silencing complexes.
Mere Position Effect in Booking Hotels Online

When travelers book hotels online, they are typically provided with a list of relevant hotels. Although presenting hotels on the screen in a list format seems appropriate for organizing the information, it creates a new (spurious) attribute for them: their position on the list. We tested experimentally whether the hotel's position on the list affects its likelihood of being selected. Results revealed a nonlinear effect of hotel position on the list on choice: hotels that were listed at the top and bottom of the list were more likely to be chosen than those listed in the middle. This study suggests that even trivial web design choices, such as the choice of presenting data in lists, might result in nontrivial consequences on the behavior of prospective customers.
Selective nucleolus organizer inactivation in Arabidopsis is a chromosome position effect phenomenon
Venue: Proceedings of the National Academy of Sciences

For decades, rRNA genes have been known to be differentially regulated during growth and development, with some genes being expressed and other genes being inactive. However, rRNA genes are so similar in sequence that the basis for choosing among them to differentially express some, but not others, has long been a puzzle. This study demonstrates that entire clusters of rRNA genes, known as nucleolus organizer regions, are silenced based on the chromosome on which they reside. Nucleolus organizer regions (NORs) are chromosomal loci where hundreds of rRNA genes are clustered. Despite being nearly identical in sequence, specific rRNA genes are selected for silencing during development via choice mechanism(s) that remain unclear. In Arabidopsis thaliana, rRNA gene subtypes that are silenced during development were recently mapped to the NOR on chromosome 2, NOR2, whereas active rRNA genes map to NOR4, on chromosome 4. In a mutant line deficient for ATXR5 or ATXR6 dependent histone H3 lysine 27 (H3K27) monomethylation, we show that millions of base pairs of chromosome 4, including the telomere, TEL4N, and much of NOR4, have been converted to the corresponding sequences of chromosome 2. This genomic change places rRNA genes of NOR2, which are normally silenced, at the position on chromosome 4 where active rRNA genes are normally located. At their new location, NOR2 derived rRNA genes escape silencing, independent of the atxr mutations, indicating that selective rRNA gene silencing is chromosome 2 specific. The chromosome 2 position effect is not explained by the NOR2 associated telomere, TEL2N, which remains linked to the translocated NOR, implicating centromere proximal sequences in silencing.
DNA methylation profiling of primary neuroblastoma tumors using methyl CpG binding domain sequencing
Venue: Scientific data

Comprehensive genome wide DNA methylation studies in neuroblastoma (NB) a childhood tumor that originates from precursor cells of the sympathetic nervous system, are scarce. Recently, we profiled the DNA methylome of 102 well annotated primary NB tumors by methyl CpG binding domain (MBD) sequencing, in order to identify prognostic biomarker candidates. In this data descriptor, we give details on how this data set was generated and which bioinformatics analyses were applied during data processing. Through a series of technical validations, we illustrate that the data are of high quality and that the sequenced fragments represent methylated genomic regions. Furthermore, genes previously described to be methylated in NB are confirmed. As such, these MBD sequencing data are a valuable resource to further study the association of NB risk factors with the NB methylome, and offer the opportunity to integrate methylome data with other omic data sets on the same tumor samples such as gene copy number and gene expression, also publically available.
A Survey of Channel Bonding for Wireless Networks and Guidelines of Channel Bonding for Futuristic Cognitive Radio Sensor Networks
Venue: IEEE Communications Surveys Tutorials

Channel bonding (CB) is a proven technique to increase bandwidth and reduce delays in wireless networks. It has been applied in traditional wireless networks such as cellular networks and wireless local area networks along with the emerging cognitive radio networks. This paper first focuses on providing a survey of CB schemes for traditional wireless networks such as cellular networks, wireless local area networks, and wireless sensor networks, and then provides a detailed discussion on the CB schemes proposed for cognitive radio networks. Finally, we highlight a number of issues and challenges regarding CB in cognitive radio sensor networks and also provide some guidelines on using CB schemes in these futuristic networks.
PRACB: A Novel Channel Bonding Algorithm for Cognitive Radio Sensor Networks
Venue: IEEE Access

Wireless sensor networks (WSNs) can utilize the unlicensed industrial, scientific, and medical (ISM) band to communicate the sensed data. The ISM band has been already saturated due to the overlaid deployment of WSNs. To solve this problem, WSNs have been powered up by cognitive radio (CR) capability. By using CR capability, WSNs can utilize the spectrum holes opportunistically. The sensor nodes, which need large bandwidth to transmit their sensed data from source to destination require some scheme, which should be able to provide them a wide band channel whenever required. Channel bonding (CB) is a technique through which multiple contiguous channels can be combined to form a single wide band channel. By using CB technique, CR based WSN nodes attempt to find and combine contiguous channels to avail larger bandwidth. In this paper, we show that by increasing the number of channels, the probability of finding contiguous channels decreases. Moreover, we then propose a primary radio (PR) user activity aware CB algorithm and compare it with three state of the art schemes: SWA, KNOWS, and AGILE. It has been demonstrated through extensive NS 2 simulations that intelligent CB decisions can reduce harmful interference to PR nodes. We find that CB in CR sensor networks attempts to provide greater bandwidth and utilizes the spectrum effectively.
Multi channel and cognitive radio approaches for wireless sensor networks
Venue: Comput. Commun.

In traditional wireless sensor networks communicating on a single channel data throughput measured at the sink is constrained by the radio capability, interference, and collisions. Enabling a multi channel transmission is a potential solution to alleviate the above problem and improve the network performance. Many approaches have been proposed to exploit multiple channels on unlicensed frequencies. The advanced development of cognitive radio enables wireless sensor networks to use vacant licensed channels. Cognitive radio wireless sensor networks enable a dynamic channel selection with the restriction of releasing a channel when a primary user is present. When nodes are set on different channels, coordination has to be carefully designed to ensure a successful transmission. This issue is mainly addressed at the MAC and network layers. In this paper, we provide an intensive survey on various aspects of traditional and cognitive multi channel wireless sensor networks. Different approaches are categorized based on their underlying topology. Major developments are discussed and drawbacks of the existing approaches are identified.
CATs Clustered k Anonymization of Time Series Data with Minimal Information Loss and Optimal Re identification Risk

Time series is a significant type of data, widely used in diverse application such as financial, medical, and weather analyses, which in turn contain personal privacy to a great extent.  The perquisite to protect privacy of time series data is to bolster the data holder to get involved in the above applications without any privacy threats. The k anonymization approach of time series data has picked up consideration over late years, a key requirement of such an approach is to guarantee anonymization of time series data while minimizing the information loss caused from that approach.  In this article, we implemented a novel methodology called CATs (Clustered k Anonymization of Time Series Data) that applies the idea of clustering on time series data and ensure anonymization by gaining minimized information loss within venerable utility. The fundamental perception here is that the time series data tuples that are alike, ought to be a part of one cluster, and de identification of these tuples is furnished. We thus formulate and proposed this approach as CATs, implemented through mishmash of WEKA and ARX anonymization tool. We have executed the solution on two benchmark time series data set available in UCR, Our experimental result strives that CATs confirms to have minimal information loss ranging from 18% to 24% reduction rate when compared with existing TSA (Time Series Anonymization) approaches.  As result of our experimentation, we express that our approach can play a remarkable role in the field of financial management, Online Medical process monitoring and management etc.
A Clustering Approach Using Fractional Calculus Bacterial Foraging Optimization Algorithm for k Anonymization in Privacy Preserving Data Mining
Venue: Int. J. Inf. Secur. Priv.

A tremendous amount of personal data of an individual is being collected and analyzed using data mining techniques. Such collected data, however, may also contain sensitive data about an individual. Thus, when analyzing such data, individual privacy can be breached. Therefore, to preserve individual privacy, one can find numerous approaches proposed for the same in the literature. One of the solutions proposed in the literature is k anonymity which is used along with the clustering approach. During the investigation, the authors observed that the k anonymization based clustering approaches all the times result in the loss of information. This paper presents a fractional calculus based bacterial foraging optimization algorithm FC BFO to generate an optimal cluster. In addition to this, the authors utilize the concept of fractional calculus FC in the chemotaxis step of a bacterial foraging optimization BFO algorithm. The main objective is to improve the optimization ability of the BFO algorithm. The authors also evaluate their proposed FC BFO algorithm, empirically, focusing on information loss and execution time as a vital metric. The experimental evaluations show that our proposed FC BFO algorithm generates an optimal cluster with lesser information loss as compared with the existing clustering approaches.
Dopaminergic reward sensitivity can promote adolescent health: A new perspective on the mechanism of ventral striatum activation
Venue: Developmental Cognitive Neuroscience

The prevailing view in the field of adolescent brain development is that heightened activity in the mesolimbic dopaminergic reward system serves as a liability, orienting adolescents toward risky behaviors, increasing their sensitivity to social evaluation and loss, and resulting in compromised well being. Several findings inconsistent with this deficit view challenge the perspective that adolescent reward sensitivity largely serves as a liability and highlights the potential adaptive function that heightened striatal reactivity can serve. The goal of this review is to refine our understanding of dopaminergic reward sensitivity in adolescence. I review several studies showing that ventral striatum activation serves an adaptive function for adolescents' health and well being relating to declines in both risk taking and depression and increases in cognitive persistence and achievement.
Does foreign direct investment lead to lower CO2 emissions? Evidence from a regional analysis in China

Existing studies have been concerned with the relationship between foreign direct investment and CO2 emissions in recent years. However, little attention has been paid to regional differences in China. This paper investigates the impact of FDI on China's CO2 emissions at the national and regional levels using provincial panel data from 1995 to 2010. The Stochastic Impacts by Regression on Population, Affluence, and Technology (STIRPAT) model was adopted. The results suggest that FDI contributes to CO2 emission reductions in China. FDI's impact on CO2 emissions decreases from the western region to the eastern and central regions. Our findings support the pollution halo hypothesis, which claims that foreign firms can export greener technologies from developed to developing countries and conduct business in an environmentally friendly manner.
Does environmental regulation drive away inbound foreign direct investment? Evidence from a quasi natural experiment in China

This paper investigates whether environmental regulation affects inbound foreign direct investment. The identification uses the Two Control Zones (TCZ) policy implemented by the Chinese government in 1998, in which tougher environmental regulations were imposed in TCZ cities but not others. Our difference in difference in differences estimation explores three dimension variations; specifically, city (i.e. TCZ versus non TCZ cities) industry (i.e. more polluting industries relative to less polluting ones) and year (i.e. before and after the TCZ policy) We find that tougher environmental regulation leads to less foreign direct investment. Meanwhile, we find that foreign multinationals from countries with better environmental protections than China are insensitive to the toughening environmental regulation, while those from countries with worse environmental protections than China show strong negative responses.