Miracle-dz/UniFAR-FTUs huggingface dataset:
Low lamin A expression in lung adenocarcinoma cells from pleural effusions is a pejorative factor associated with high number of metastatic sites and poor Performance status

The type V intermediate filament lamins are the principal components of the nuclear matrix, including the nuclear lamina. Lamins are divided into A-type and B-type, which are encoded by three genes, LMNA, LMNB1, and LMNB2. The alternative splicing of LMNA produces two major A-type lamins, lamin A and lamin C. Previous studies have suggested that lamins are involved in cancer development and progression. A-type lamins have been proposed as biomarkers for cancer diagnosis, prognosis, and/or follow-up. The aim of the present study was to investigate lamins in cancer cells from metastatic pleural effusions using immunofluorescence, western blotting, and flow cytometry. In a sub-group of lung adenocarcinomas, we found reduced expression of lamin A but not of lamin C. The reduction in lamin A expression was correlated with the loss of epithelial membrane antigen (EMA)/MUC-1, an epithelial marker that is involved in the epithelial to mesenchymal transition (EMT). Finally, the lamin A expression was inversely correlated with the number of metastatic sites and the WHO Performance status, and association of pleural, bone and lung metastatic localizations was more frequent when lamin A expression was reduced. In conclusion, low lamin A but not lamin C expression in pleural metastatic cells could represent a major actor in the development of metastasis, associated with EMT and could account for a pejorative factor correlated with a poor Performance status.
Organization and Regulation of Pentachlorophenol-Degrading Genes in Sphingobium chlorophenolicum ATCC 39723

ABSTRACT The first three enzymes of the pentachlorophenol (PCP) degradation pathway in Sphingobium chlorophenolicum (formerly Sphingomonas chlorophenolica) ATCC 39723 have been characterized, and the corresponding genes, pcpA, pcpB, and pcpC, have been individually cloned and sequenced. To search for new genes involved in PCP degradation and map the physical locations of the pcp genes, a 24-kb fragment containing pcpA and pcpC was completely sequenced. A putative LysR-type transcriptional regulator gene, pcpM, and a maleylacetate reductase gene, pcpE, were identified upstream of pcpA. pcpE was found to play a role in PCP degradation. pcpB was not found on the 24-kb fragment. The four gene products PcpB, PcpC, PcpA, and PcpE were responsible for the metabolism of PCP to 3-oxoadipate in ATCC 39723, and inactivational mutation of each gene disrupted the degradation pathway. The organization of the pcp genes is unusual because the four PCP-degrading genes, pcpA, pcpB, pcpC, and pcpE, were found to be located at four discrete locations. Two hypothetical LysR-type regulator genes, pcpM and pcpR, have been identified; pcpM was not required, but pcpR was essential for the induction of pcpB, pcpA, and pcpE. The coinducers of PcpR were PCP and other polychlorinated phenols. The expression of pcpC was constitutive. Thus, the organization and regulation of the genes involved in PCP degradation to 3-oxoadipate were documented.
Chemical Reactions Catalyzed by Metalloporphyrin-Based Metal-Organic Frameworks

The synthetic versatility and the potential application of metalloporphyrins (MP) in different fields have aroused researchers’ interest in studying these complexes, in an attempt to mimic biological systems such as cytochrome P-450. Over the last 40 years, synthetic MPs have been mainly used as catalysts for homogeneous or heterogeneous chemical reactions. To employ them in heterogeneous catalysis, chemists have prepared new MP-based solids by immobilizing MP onto rigid inorganic supports, a strategy that affords hybrid inorganic-organic materials. More recently, materials obtained by supramolecular assembly processes and containing MPs as building blocks have been applied in a variety of areas, like gas storage, photonic devices, separation, molecular sensing, magnets, and heterogeneous catalysis, among others. These coordination polymers, known as metal-organic frameworks (MOFs), contain organic ligands or complexes connected by metal ions or clusters, which give rise to a 1-, 2- or 3-D network. These kinds of materials presents large surface areas, Brønsted or redox sites, and high porosity, all of which are desirable features in catalysts with potential use in heterogeneous phases. Building MOFs based on MP is a good way to obtain solid catalysts that offer the advantages of bioinspired systems and zeolitic materials. In this mini review, we will adopt a historical approach to present the most relevant MP-based MOFs applicable to catalytic reactions such as oxidation, reduction, insertion of functional groups, and exchange of organic functions.
Compressed hyperspectral sensing

Acquisition of high dimensional Hyperspectral Imaging (HSI) data using limited dimensionality imaging sensors has led to restricted capabilities designs that hinder the proliferation of HSI. To overcome this limitation, novel HSI architectures strive to minimize the strict requirements of HSI by introducing computation into the acquisition process. A framework that allows the integration of acquisition with computation is the recently proposed framework of Compressed Sensing (CS). In this work, we propose a novel HSI architecture that exploits the sampling and recovery capabilities of CS to achieve a dramatic reduction in HSI acquisition requirements. In the proposed architecture, signals from multiple spectral bands are multiplexed before getting recorded by the imaging sensor. Reconstruction of the full hyperspectral cube is achieved by exploiting a dictionary of elementary spectral profiles in a unified minimization framework. Simulation results suggest that high quality recovery is possible from a single or a small number of multiplexed frames.
Thoroughbred Horse Single Nucleotide Polymorphism and Expression Database: HSDB

Genetics is important for breeding and selection of horses but there is a lack of well-established horse-related browsers or databases. In order to better understand horses, more variants and other integrated information are needed. Thus, we construct a horse genomic variants database including expression and other information. Horse Single Nucleotide Polymorphism and Expression Database (HSDB) (http://snugenome2.snu.ac.kr/HSDB) provides the number of unexplored genomic variants still remaining to be identified in the horse genome including rare variants by using population genome sequences of eighteen horses and RNA-seq of four horses. The identified single nucleotide polymorphisms (SNPs) were confirmed by comparing them with SNP chip data and variants of RNA-seq, which showed a concordance level of 99.02% and 96.6%, respectively. Moreover, the database provides the genomic variants with their corresponding transcriptional profiles from the same individuals to help understand the functional aspects of these variants. The database will contribute to genetic improvement and breeding strategies of Thoroughbreds.
Calculation of a Health Index for Oil-Immersed Transformers Rated Under 69 kV Using Fuzzy Logic

This paper presents a new method for calculating a health index for transformers (for operating voltage 69 kV or less) based on diagnostic tests. The method relies on the use of furan analysis, dissolved gas analysis, and other oil analysis results as a means of calculating the health index using fuzzy set theory. Real field data for 90 working transformers were used to test the proposed method. The results were compared with the results calculated for the same set of transformers by an experienced asset management and health assessment consulting company. The comparison shows that the results are highly reliable.
Stochastic Discourse Modeling in Spoken Dialogue Systems Using Semantic Dependency Graphs

This investigation proposes an approach to modeling the discourse of spoken dialogue using semantic dependency graphs. By characterizing the discourse as a sequence of speech acts, discourse modeling becomes the identification of the speech act sequence. A statistical approach is adopted to model the relations between words in the user's utterance using the semantic dependency graphs. Dependency relation between the headword and other words in a sentence is detected using the semantic dependency grammar. In order to evaluate the proposed method, a dialogue system for medical service is developed. Experimental results show that the rates for speech act detection and task-completion are 95.6% and 85.24%, respectively, and the average number of turns of each dialogue is 8.3. Compared with the Bayes' classifier and the Partial-Pattern Tree based approaches, we obtain 14.9% and 12.47% improvements in accuracy for speech act identification, respectively.
Money- and Exchange-Rate-Based Disinflation in a Redux Model with Staggered Wage Setting

An analytical dynamic general equilibrium model of a small open economy with tradeable and nontradeable sectors is constructed. Workers have monopoly power and wage setting is staggered. Initially, the economy is in an inflationary steady state with a floating exchange rate. Money-based disinflation produces a short–run recession in both sectors, whereas exchange-rate-based stabilisation generates an initial boom in both. These results accord with the stylised facts. Moderation of wage inflation by forward-looking wage setters is the novel mechanism generating the boom under exchange-rate-based stabilisation. Longer run effects and effects on other variables are also discussed.
On the effectiveness of cloud cover avoidance methods in support of the Super-spectral Mission for Land Applications

The driving application of the Super-spectral Mission for Land Applications (SMLA) is precision farming. With its optical instrument a large amount of small and scattered targets need to be imaged frequently during the growing season. This paper discusses cloud cover avoidance methods to improve end-to-end system efficiency while maintaining the effective revisit time performance. With the concept of selective imaging only selected parts of the data recorded during the track over the Area Of Interest (AOI) are stored in the on-board memory. This selection can be made based on for example meteorological satellite cloud maps acquired just prior to the pass over the AOI. The purpose is to acquire data with a higher degree of usability. Cloud editing is an on-board process of cloud detection and subsequent discarding data representing cloud cover. Also in this case it is possible to downlink more usable image data. The effectiveness of the methods has been assessed by simulations using a high-resolution cloud database. It can be concluded that in both cases the amount of usable data can be almost doubled at the cost of a slight Increase of effective revisit time.
The cohomology rings of moduli spaces of bundles over Riemann surfaces

The cohomology of the moduli space JI(n, d) of semistable bundles of coprime rank n and degree d over a fixed Riemann surface M of genus g > 2 has been much studied over the last two decades, and a great deal is known about it. It is known that the cohomology has no torsion [2], the Betti numbers have been computed using various different methods [2, 5, 11], and a set of generators for the cohomology ring is known [2]. The purpose of this article is to provide a method of deciding when an expression in these generators is a relation, and in particular, when the rank n is two, to prove two conjectures about the relations between the generators due to Mumford and to Newstead and Ramanan. Newstead and Ramanan conjectured that certain relations hold among the generators, whereas Mumford conjectured that a certain set of relations is a complete set. In fact the conjecture of Newstead and Ramanan has two parts, the first of which was proved by Gieseker in 1982 [4]. The second part of their conjecture, which is the part examined in this article, was given an independent proof recently by Thaddeus [19], who has a very different method of obtaining information about the relations in the cohomology ring. The computation of the Betti numbers of the moduli spaces . I'(n, d) in [2] stimulated a general method of computing Betti numbers of quotients in the sense of Mumford's geometric invariant theory [14] of nonsingular complex projective varieties by complex reductive group actions (see [8, 9, 10]). Similarly the ideas applied in this article to finding generators and relations for the cohomology rings of the moduli spaces . I'(n, d) also lead to an analogous method of obtaining generators and relations for the rational cohomology rings of geometric invariant theoretic quotients. The first section provides background material on the cohomology of the moduli spaces . I'(n, d) . In the second section, Mumford's conjecture is proved when the rank n is two. The method could, in principle, be used to decide whether the conjecture is true for rank n > 2 but appears to become significantly more complicated in the general case. The third section gives a method for deciding when an expression in the generators is a relation, and the fourth
Multiview texture coding and free viewpoint image synthesis for mesh-based 3D video transmission

In this paper, the “3D mesh model plus texture” strategy is adopted to implement a 3D video system. First, the acquired multi-view videos are processed to construct dynamic 3D mesh models about the foreground subject. These 3D mesh models, together with the acquired texture information, are then compressed and transmitted via networks to receivers. Main contributions of our work lies on the proposals of data reduction and pre-processing of multi-view texture information before H.264/AVC encoding at transmitter and a robust occlusion test on synthesizing novel views at receiver. Our proposed data reduction and pre-processing schemes are capable of removing redundant texture information, while maintaining inter-frame correlation, to result in high coding efficiency. Experiment results show that the proposed occlusion test is capable of eliminating texture-rendering artifacts due to 3D model reconstruction errors, thus improving the viewing quality of 3D video at receiver. Besides, our texture encoder achieves a saving of 40% ~ 57% in transmission bit rate, compared with the traditional approach.
Structure and distribution of modules in extracellular proteins

It has become standard practice to compare new amino-acid and nucleotide sequences with existing ones in the rapidly growing sequence databases. This has led to the recurring identification of certain sequence patterns, usually corresponding to less than 300 amino-acids in length. Many of these identifiable sequence regions have been shown to fold up to form a ‘domain’ structure; they are often called protein ‘modules’ (see definitions below). Proteins that contain such modules are widely distributed in biology, but they are particularly common in extracellular proteins.
A Digitalized Gyroscope System Based on a Modified Adaptive Control Method

In this work we investigate the possibility of applying the adaptive control algorithm to Micro-Electro-Mechanical System (MEMS) gyroscopes. Through comparing the gyroscope working conditions with the reference model, the adaptive control method can provide online estimation of the key parameters and the proper control strategy for the system. The digital second-order oscillators in the reference model are substituted for two phase locked loops (PLLs) to achieve a more steady amplitude and frequency control. The adaptive law is modified to satisfy the condition of unequal coupling stiffness and coupling damping coefficient. The rotation mode of the gyroscope system is considered in our work and a rotation elimination section is added to the digitalized system. Before implementing the algorithm in the hardware platform, different simulations are conducted to ensure the algorithm can meet the requirement of the angular rate sensor, and some of the key adaptive law coefficients are optimized. The coupling components are detected and suppressed respectively and Lyapunov criterion is applied to prove the stability of the system. The modified adaptive control algorithm is verified in a set of digitalized gyroscope system, the control system is realized in digital domain, with the application of Field Programmable Gate Array (FPGA). Key structure parameters are measured and compared with the estimation results, which validated that the algorithm is feasible in the setup. Extra gyroscopes are used in repeated experiments to prove the commonality of the algorithm.
A phenotype‐driven ENU mutagenesis screen identifies novel alleles with functional roles in early mouse craniofacial development

Proper craniofacial development begins during gastrulation and requires the coordinated integration of each germ layer tissue (ectoderm, mesoderm, and endoderm) and its derivatives in concert with the precise regulation of cell proliferation, migration, and differentiation. Neural crest cells, which are derived from ectoderm, are a migratory progenitor cell population that generates most of the cartilage, bone, and connective tissue of the head and face. Neural crest cell development is regulated by a combination of intrinsic cell autonomous signals acquired during their formation, balanced with extrinsic signals from tissues with which the neural crest cells interact during their migration and differentiation. Although craniofacial anomalies are typically attributed to defects in neural crest cell development, the cause may be intrinsic or extrinsic. Therefore, we performed a phenotype‐driven ENU mutagenesis screen in mice with the aim of identifying novel alleles in an unbiased manner, that are critically required for early craniofacial development. Here we describe 10 new mutant lines, which exhibit phenotypes affecting frontonasal and pharyngeal arch patterning, neural and vascular development as well as sensory organ morphogenesis. Interestingly, our data imply that neural crest cells and endothelial cells may employ similar developmental programs and be interdependent during early embryogenesis, which collectively is critical for normal craniofacial morphogenesis. Furthermore our novel mutants that model human conditions such as exencephaly, craniorachischisis, DiGeorge, and Velocardiofacial sydnromes could be very useful in furthering our understanding of the complexities of specific human diseases. genesis 49:342–359, 2011. © 2011 Wiley‐Liss, Inc.
A comparative study of online news retrieval and presentation strategies

We introduce a news retrieval system on which we evaluated three alternative presentation strategies for online news retrieval. We used a user-oriented and task-oriented evaluation framework. The interfaces studied were Image, giving a grid of thumbnails for each story together with query-based summaries presented as tooltips, Summary, which displayed the summary information alongside each thumbnail, and Cluster, which grouped similar stories together and used the same display format as Image. The evaluation showed that the Summary Interface was preferred to the Image Interface, and that the Cluster Interface was helpful to users with a set task to complete. The implications of this study are also discussed in this paper.
Automatic Paragraph Identification: A Study across Languages and Domains

In this paper we investigate whether paragraphs can be identiﬁed automatically in different languages and domains. We propose a machine learning approach which exploits textual and discourse cues and we assess how well humans perform on this task. Our best models achieve an accuracy that is signiﬁcantly higher than the best baseline and, for most data sets, comes to within 6% of human performance.
Dual-Band Size Deducted UnEqual Arm Y-Shaped Printed Antenna for Satellite Communication

A dual-band deducted un-equal arm Y-shaped printed antenna is thoroughly simulated in this paper. Resonant frequency has been reduced drastically consists of Y-shaped slot in middle point located from the conventional microstrip patch antenna. It is shown that the simulated results are in acceptable agreement. More importantly, it is also shown that the differentially-driven microstrip antenna has higher gain of simulated 4.69 dBi at 6.23GHz and 4.18 dBi at 9.56GHz and beam width of simulated 170.38 0 at 6.23GHz and 166.131 0 at 9.56GHz of the printed antenna. Compared to a conventional microstrip patch antenna, simulated antenna size has been reduced by 52.02% with an increased frequency ratio.
BAR Domains as Sensors of Membrane Curvature: The Amphiphysin BAR Structure

The BAR (Bin/amphiphysin/Rvs) domain is the most conserved feature in amphiphysins from yeast to human and is also found in endophilins and nadrins. We solved the structure of the Drosophila amphiphysin BAR domain. It is a crescent-shaped dimer that binds preferentially to highly curved negatively charged membranes. With its N-terminal amphipathic helix and BAR domain (N-BAR), amphiphysin can drive membrane curvature in vitro and in vivo. The structure is similar to that of arfaptin2, which we find also binds and tubulates membranes. From this, we predict that BAR domains are in many protein families, including sorting nexins, centaurins, and oligophrenins. The universal and minimal BAR domain is a dimerization, membrane-binding, and curvature-sensing module.
The influence of the length of the school day on Grade 11 NJ HSPA scores

THE INFLUENCE OF THE LENGTH OF THE SCHOOL DAY ON GRADE 11 NJ HSPA SCORES This study examined the strength and the direction of the relationship between the length of the school day and Grade 11, 2011 New Jersey High School Proficiency Assessment (HSPA) scores found on the New Jersey Department of Education (NJDOE, 2012a) website. Student achievement scores on the Grade 11, 2011 HSPA in Language Arts and Mathematics were analyzed separately. Analyses were conducted using simultaneous regression and hierarchical multiple models. All student data explored in this study pertained to 98,218 first-time, Grade 11 students (NJDOE, 2011c) enrolled in 326 public high schools in districts designated by District Factor Groups A-J (NJDOE, 2012a) comprehensive high schools located in the state of New Jersey during the 2010-2011 academic school year. The results of the study revealed that using the length of the school day as an independent variable to predict the dependent variable of student 2011 NJ HSPA mathematics passing percentage accounted for 1.8 percent in the variance. For Language Arts, however, the length of the school day was found to have a nonstatistically significant relationship with the original dependent variable (the HSPA passing percentage). The sample was taken from the NJDOE, NJ School Report Card 2011 (NJDOE, 2012a) representative of a proportional random sample of the state's district composition. Recommendations for policy, practice, and future research were explored.
Experiences with using SVM-based learning for multi-objective ranking

We describe our experiences in applying learning-to-rank techniques to improving the quality of search results of an online hotel reservation system. The search result quality factors we use are average booking position and distribution of margin in top-ranked results. (We expect that total revenue will increase with these factors.) Our application of the SVMRank technique improves booking position by up to 25% and margin distribution by up to 14%.