Miracle-dz/UniFAR-FTUs huggingface dataset:
Generational comparisons (F1 versus F3) of vinclozolin induced epigenetic transgenerational inheritance of sperm differential DNA methylation regions (epimutations) using MeDIP-Seq

Abstract Environmentally induced epigenetic transgenerational inheritance of disease and phenotypic variation has been shown to involve DNA methylation alterations in the germline (e.g. sperm). These differential DNA methylation regions (DMRs) are termed epimutations and in part transmit the transgenerational phenotypes. The agricultural fungicide vinclozolin exposure of a gestating female rat has previously been shown to promote transgenerational disease and epimutations in F3 generation (great-grand-offspring) animals. The current study was designed to investigate the actions of direct fetal exposure on the F1 generation rat sperm DMRs compared to the F3 transgenerational sperm DMRs. A protocol involving methylated DNA immunoprecipitation (MeDIP) followed by next-generation sequencing (Seq) was used in the current study. Bioinformatics analysis of the MeDIP-Seq data was developed and several different variations in the bioinformatic analysis were evaluated. Observations indicate needs to be considered. Interestingly, the F1 generation DMRs were found to be fewer in number and for the most part distinct from the F3 generation epimutations. Observations suggest the direct exposure induced F1 generation sperm DMRs appear to promote in subsequent generations alterations in the germ cell developmental programming that leads to the distinct epimutations in the F3 generation. This may help explain the differences in disease and phenotypes between the direct exposure F1 generation and transgenerational F3 generation. Observations demonstrate a distinction between the direct exposure versus transgenerational epigenetic programming induced by environmental exposures and provide insights into the molecular mechanisms involved in the epigenetic transgenerational inheritance phenomenon.
Curve Matching with Probabilistic Relaxation

Reliable curve matching is a difficult proble~rl but is required in Inany visio11-based applicatio~ls. It is particularly difficult when the edges in question are not li~rlited to be on straight lines. Our 1riai11 corltribution in this paper is to propose a new algorithr~i for curve matching (illcludi~lg lines). The nlethod is described within a probabilistic relaxatio~l fra~rlework. Novel si~~lilarity-invariant urlary and bi~lary l~ieasure~rlents suitable for curves are developed, and a11 additiorlal r~leasurerrierlt is irltroduced to 111odel the u~lcertairity of tlie binary ~neasure~nents, which is very i~~lporta~lt i11 corrlputi~ig the matching support fro111 neighboring matches. Experinlents with co~rlplex real scenes show that the rate of correct nlatching is higher than 98%.
Prognostic Implication of FLT 3 and N-RAS Gene Mutations in Acute Myeloid Leukemia

Internal tandem duplication of the FLT3 gene and point mutations of the N-RAS gene are the most frequent somatic mutations causing aberrant signal-transduction in acute myeloid leukemia (AML). However, their prognostic importance is unclear. In this study, their prognostic significance was analyzed in 201 newly diagnosed patients with de novo AML except acute promyelocytic leukemia. Three patients had mutations in both genes, 43 had only the FLT3 gene mutation, 25 had only the N-RAS gene mutation, and 130 had neither. These mutations seemed to occur independently. Both mutations were related to high peripheral white blood cell counts, and the FLT3 gene mutation was infrequently observed in the French-American-British (FAB)-M2 type. AML cases with wild FLT3/mutant N-RAS had a lower complete remission (CR) rate than those with wild FLT3/wild N-RAS, whereas the presence of mutant FLT3 did not affect the CR rate. Univariate analysis showed that unfavorable prognostic factors for overall survival were age 60 years or older (P 5 .0002), cytogenetic data (P 5 .002), FAB types other than M2 (P 5 .002), leukocytosis over 100 6 109/L (P 5 .003), and the FLT3 gene mutation (P 5 .004). However, the N-RAS gene mutation was only a marginal prognostic factor (P 5 .06). For the subjects under 60 years old, multivariate analysis showed that the FLT3 gene mutation was the strongest prognostic factor (P 5 .008) for overall survival. The FLT3 gene mutation, whose presence is detectable only by genomic polymerase chain reaction amplification and gel electrophoresis, might serve as an important molecular marker to predict the prognosis of patients with AML. r 1999 by The American Society of Hematology.
Kinetics of respiratory depression in rats induced by buprenorphine and its metabolite, norbuprenorphine.

The respiratory depression induced by buprenorphine and its active metabolite, norbuprenorphine (NBN), was evaluated in rats by measurement of changes in respiratory rate and arterial pCO2 levels. After i.v. bolus administration of buprenorphine no effects were noted over the dose range 0.008 to 3 mg/kg; by contrast, the respiratory rate after rapid i.v. administration of NBN decreased in a dose-dependent fashion within the dose range of 1 to 3 mg/kg, and the arterial pCO2 levels also varied in relation to the change in respiratory rate. The minimum respiratory rate was observed 15 min after NBN administration. Judging by the respiratory depressive effect after i.v. infusion, NBN was approximately 10 times more potent than the parent drug. In spite of the similarity of NBN concentrations in the brain after i.a. and after i.v. administration of NBN (3 mg/kg), neither the respiratory rate nor the arterial pCO2 levels after i.a. administration changed compared with the control levels. Moreover, the NBN concentration in the lungs after i.v. administration was approximately 4-fold higher than that after i.a. administration. NBN-induced depression was rapidly reduced after i.v. administration of naloxone and beta-funaltrexamine, but ICI 174864 was without effect. These results suggest that the respiratory depression induced by NBN may be mediated by opioid mu receptors in the lung rather than in the brain.
Feature-Based ITG for Unsupervised Word Alignment

Inversion transduction grammar (ITG) (1) is an effective constraint to word alignment search space. However, the traditional unsupervised ITG word alignment model is incapable of utilizing rich features. In this paper, we propose a novel feature-based unsupervised ITG word alignment model. With the help of rich features and regularization, a compact grammar is learned. Experiments on both word alignment and end-to-end statistical machine translation (SMT) task show that our model achieves better performance than the traditional ITG model with the AER of word alignment improved by 3 points and the BLEU score of SMT improved by 0.8 points.
Certain Psychological Aspects of Children's Learning To Read.

language is a means of communication ordinarily thought of as being directed from person to person. It belongs to man as a mem ber of a social community. It is the means whereby man encodes and decodes meanings by using signals or symbols. As such, lan guage has a fineness of clear and repeated accuracy needed to make a code. In brief, language is a code that represents the learned behavior of a social community. To think of communication and language in the person-to-person or social sense is to think of it functionally. Since the function of language is to communicate, teaching must be based on the functional use of language? to communicate. Human interest in language appears to be innate. Babies, if left alone, will make attempts at speech. A community of people out of contact with other groups will emerge with an unmistakeable language. Apparently the impulse to use some kind of language is intense, both psycho-neurologically and socially. Speech is a human activity and a learned activity. Whatever the mode of speech acquired by a social community, it is a particu lar language which has to be learned in each special instance. Each language, dialect, vernacular, jargon, slang represents man's free dom and ability to use any pronounceable sound code for some meaning or other and to pass on this code from generation to gen eration. Speech is sometimes regarded as man's greatest achieve ment. It permits man to attach significance to sounds, to retain and use a huge repertoire of codified sounds, and to form complex rela tionships between experience, sounds, and words. Most children are responsive to the continuous stream of lan guage influences in the world about them. They are alive to what is happening phonetically and linguistically in their world, and are participating in a continual development of language and its exchange. Because of the arbitrary nature of language, it is almost more a process than a means of storage. Language is constantly meeting the demands of the time as new words are added, old 634
Multi-unit Combinatorial Reverse Auctions with Substitutability Relationships among Goods

In this paper we extend the notion of multi-unit combinatorial reverse auction by adding a new dimension to the goods at auction. In such a new type of combinatorial auction a buyer can express substitutability relationships among goods: some goods can be substituted with others at a substitution cost. Substitutability relationships allow a buyer to introduce his information as to whether it is more convenient to buy some goods or others. We introduce such information in the winner determination problem (WDP) so that not only does the auction help allocate the optimal set of offers —taking into account substitutability relationships—, but also assess the substitutability relationships that apply. In this way, the buyer finds out what goods to buy, to whom, and what operations(substitutions) to apply to the acquired goods in order to obtain the initially required ones.
Women's Ischemic Syndrome Evaluation: current status and future research directions: report of the National Heart, Lung and Blood Institute workshop: October 2-4, 2002: Section 6: key messages about acute ischemic heart disease in women and recommendations for practice.

Numerous studies have found that women have poorer outcomes than men after a diagnosis of acute coronary syndrome (ACS), including myocardial infarction (MI) and unstable angina. Explanations have included gender differences in pathophysiology and response to treatment, prehospital delays in symptom recognition and action, and gender differences in emergency medical services (EMS) evaluation and treatment. Recent reports of similar or better outcomes in women with ACS compared with men suggest that pathophysiological differences can be overcome with early, aggressive therapy.1,2 Therefore, a focus on improving symptom recognition by women and their healthcare providers and on reducing prehospital delay has the potential to increase the proportion of women with ACS who are eligible for this aggressive treatment. The National Heart Attack Alert Program (NHAAP) was launched by the National Heart, Lung and Blood Institute in 1991 to reduce death and disability from acute MI by reducing time to treatment through education of healthcare providers, patients, and the public about early recognition and response to acute MI symptoms.3 As part of this effort, community intervention research was designed in the form of the Rapid Early Action for Coronary Treatment (REACT) study, a randomized controlled community trial testing multistrategy campaigns to reduce patient delay in seeking care for heart attack symptoms.4 One goal of the study was to develop insights into demographic trends and message components with regard to women and their understanding of, and response to, messages about heart disease and heart attack. Conducted from 1994 to 1998 in 20 communities assigned as pairs to receive an intervention or act as reference, the study arrived at several important conclusions. There was a strong trend of reduced patient delay in seeking care for heart attack symptoms; this was evident in both reference (−6.8%) and intervention communities (−4.7%) ( P =NS). Campaigns …
The Scottish perinatal neuropathology study: clinicopathological correlation in early neonatal deaths

Background: A proportion of neonatal deaths from asphyxia have been shown to be associated with pre-existing brain injury. Objectives: (a) To compare the epidemiology of infants displaying signs of birth asphyxia with those not showing signs; (b) to examine the neuropathology and determine if possible the timing of brain insult comparing asphyxiated with non-asphyxiated infants; (c) to compare the clinical features of those born with birth asphyxia with and without pre-labour damage. Methods: Over a two year period, all 22 Scottish delivery units collected clinical details on early neonatal deaths. Requests for post mortem included separate requests for detailed neuropathological examination of the brain. Infants were classified into two groups: birth asphyxia and non-birth asphyxia. Clinicopathological correlation was used to attempt to define the time of brain insult. Results: Detailed clinical data were available on 137 of 174 early neonatal deaths that met the inclusion criteria. Seventy of 88 parents who had agreed to post mortem examination consented to a detailed examination of additional samples from the brain; in 53 of these cases the infant was born in an asphyxiated condition. All asphyxiated and encephalopathic infants, 38% of mature and 52% of preterm infants with features of birth asphyxia but without encephalopathy, and only one of 12 infants without any signs of birth asphyxia showed damage consistent with onset before the start of labour. Conclusions: In a large proportion of neonatal deaths, brain injury predates the onset of labour. This is more common in infants born in an asphyxiated condition.
Improving the accuracy of module based thermal modeling method for VLSI circuits design

Thermal-aware VLSI circuit design has become important for the advanced many-core and 3-D stacking architecture. Major bottlenecks in the design flow include the thermal modeling and analysis, which are both memory and time consuming. In this paper, we discuss the module based thermal modeling method, which divides the chip into modules and builds the thermal model by assembling the reduced module models. An accuracy enhancement framework is introduced in order to minimize the error at the module boundaries. Experiments on multi-core microprocessor show that the proposed technique leads to fast and accurate thermal analysis for VLSI circuits design.
Conditioning of Rectangular Vandermonde Matrices with Nodes in the Unit Disk

Let WN=WN(z1,z2, . . . z1) be a rectangular Vandermonde matrix of order n × N, $N\geq n,$ with distinct nodes zj in the unit disk and $z_j^{k-1}$ as its (j,k) entry. Matrices of this type often arise in frequency estimation and system identification problems. In this paper, the conditioning of WN is analyzed and bounds for the spectral condition number $\kappa_2(W_N)$ are derived. The bounds depend on n, N, and the separation of the nodes. By analyzing the behavior of the bounds as functions of N, we conclude that these matrices may become well conditioned, provided the nodes are close to the unit circle but not extremely close to each other and provided the number of columns of WN is large enough. The asymptotic behavior of both the conditioning itself and the bounds is analyzed and the theoretical results arising from this analysis verified by numerical examples.
Interactive Correlation Environment (ICE) - A Statistical Web Tool for Data Collinearity Analysis

Web tools for statistical investigation with an interactive and friendly interface enable users without programming knowledge to conduct their analyses. We develop an Interactive Correlation Environment (ICE) in an open access platform to perform spectral collinearity analysis for biogeochemical activity retrieval. We evaluate its performance on different browsers and applied it to retrieve chlorophyll-a (chl-a) concentration in a tropical reservoir. The use of ICE to retrieve water chl-a concentration got a Root Mean Square Error (RMSE) lower than 7% for seasonal datasets, enhancing ICE's ability to adapt it within season. An RMSE of 17% was found for the mixed dataset with a large range of chl-a concentrations. We conclude that the use of ICE is recommended, due to its quick response, easily manipulation, high accuracy, and empirical adaptation to seasonal variability. Its use is enhanced by the development of hyperspectral sensors, which allow the identification of several biogeochemical components, such as chl-a, phycocyanin (PC), soil salinity, soil types, leaf nitrogen, and leaf chl-a concentration.
Guidelines for Drinking-water Quality, Fourth Edition

The Guidelines for drinking-water quality are accompanied by separate texts that provide background information substantiating the derivation of the Guidelines and providing guidance on good practice towards effective implementation. These are available as published texts, through the Internet (http://www.who.int/water_ sanitation_health/dwq/en/) and on CD-ROM. These can be ordered at http://www. who.int/bookorders.
Learning Race and Ethnicity : Youth and Digital Media

It may have been true once that (as the famous cartoon of the 1990s put it) "Nobody knows you're a dog on the Internet," and that (as an MCI commercial of that era declared) on the Internet there is no race, gender, or infirmity, but today, with the development of web cams, digital photography, cell phone cameras, streaming video, and social networking sites, this notion seems quaintly idealistic. This volume takes up issues of race and ethnicity in the new digital media landscape. The contributors address this topic--still difficult to engage honestly, clearly, empathetically, and with informed understanding in twenty-first century America--with the goal of pushing consideration of a vexing but important subject from margin to center. Learning Race and Ethnicity explores the intersection of race and ethnicity with post 9/11 politics, online hate-speech practices, and digital youth and media cultures. It examines universal access and the racial and ethnic digital divide from the perspective of digital media learning and youth. The chapters treat such subjects as racial identity in the computer-mediated public sphere, minority technology innovators, new methods of music distribution, digital artist Judy Baca's work with youth, Native American digital media literacy, and minority youth technology access and the pervasiveness of online health information. ContributorsAmbar Basu, Graham D. Bodie, Dara N. Byrne, Jessie Daniels, Mohan J. Dutta, Raiford Guins, Guisela Latorre, Antonio Lpez, Chela Sandoval, Tyrone D. Taborn, Douglas Thomas Anna Everett is Professor of Film Studies at the University of California, Santa Barbara.
Prediction of Partial Molar Volumes of Amino Acids and Small Peptides: Counting Atoms versus Topological Indices

Experimental data of partial molar volumes of amino acids and small peptides were compiled from several publications and enabled us to perform a predicative analysis based on quantitative structure-property relationships (QSPR). Based on the simplest level of the descriptors, the new method has high accuracy and was found to be more reliable when compared to the latter QSPR method based on topological indexes. Incorporation of isoelectric pH and 3-D solvent-accessible surface area parameters increased the predictability of the equation to a small extent. Cross-validation studies show that this method is successful in predicting the partial molar volumes of other noncoded amino acids, dipeptides, and diketopiperazine derivatives. This method is the beginning of new studies for larger peptides and proteins. It also can be suggested to be used for molecules that contain the same type of atoms as an amino acid.
The Organization of Cortex-Ganglia-Thalamus to Generate Movements From Motor Primitives: a Model for Developmental Robotics

The advent of humanoid robots has posed new challenges and opportunities to control complex movements; their bodies have an high number of degrees of freedom, and methods used up to now to control them are no longer efficient. The purpose of this work is to create a system that could approach these challenges. We present a bioinspired model of the cortex-basal ganglia circuit for movement generation. Our model is able to learn and control movements starting from a set of motor primitives. Experiments on the NAO robot show that the system can be a good starting point for a more complex motor system to be integrated in a bioinspired cognitive architecture.
Robust Cooperative Beamforming and Artificial Noise Design for Physical-Layer Secrecy in AF Multi-Antenna Multi-Relay Networks

This paper is concerned with an optimization problem in a two-hop relay wiretap channel, wherein multiple multi-antenna relays collaboratively amplify and forward (AF) information from a single-antenna source to a single-antenna destination, and at the same time emit artificial noise (AN) to improve physical-layer information security in the presence of multiple multi-antenna eavesdroppers (or Eves). More specifically, the problem is to simultaneously optimize the AF matrices and AN covariances for secrecy rate maximization, with robustness against imperfect channel state information of Eves via a worst-case robust formulation. Such a problem is nonconvex, and we propose a polynomial-time optimization solution based on a two-level optimization approach and semidefinite relaxation (SDR). In particular, while SDR is generally an approximation technique, we prove that SDR is optimal in the specific context here. This desirable result is obtained by careful reformulation and Karush-Kuhn-Tucker optimality analysis, where, rather interestingly, AN is found to be instrumental in providing guarantee of SDR optimality. Simulation results are provided, and the results show that the proposed joint AF-AN solution can attain considerably higher achievable secrecy rates than some existing suboptimal designs.
Crosstalk between VEGF and MTA1 signaling pathways contribute to aggressiveness of breast carcinoma

The expression of metastasis associated protein (MTA1) correlates well with tumor metastasis; however its role as a proangiogenic protein and the molecular mechanisms underlying the same are not fully understood. In this study the MTA1 protein was expressed and purified to evaluate its angiogenic potential. In both MCF‐7 and MDA‐MB‐231 cells, endogenous MTA1 protein was localized in the nucleus; while added recombinant MTA1 protein was bound to cell membrane as per immunofluorescence data. MTA1 was detected both in conditioned media and in human serum samples. Recombinant MTA1 regulated cellular functions of HUVEC's such as, proliferation, tube formation, and migration. MTA1 was more potent than VEGF in inducing invasion of breast cancer cells. Analogous to VEGF, MTA1 could induce angiogenesis in both non‐tumor and tumor context, as verified by rat cornea, shell less CAM and xenograft models respectively. However MTA‐1 was more potent an inducer of angiogenesis. VEGF or Flt‐1 gene promoter, luciferase gene reporter analysis revealed that MTA1 up regulates the expression of VEGF and its receptor Flt‐1 genes. Kinetics of VEGF‐induced expression of MTA1 and qPCR studies showed that there is an increased expression of MTA1 in tumor cells. VEGF induced phosphorylation of endogenous MTA1 on tyrosine residues; phosphorylation was mediated through VEGFR2 and p38‐MAP kinase. Recombinant MTA1 activated signaling, in MCF‐7 and MDA‐MB‐231 cells, involved ERK and JNK pathways. In conclusion, MTA1 is a potent angiogenic molecule and cross talk between VEGF and MTA1 protein regulates tumor angiogenesis and metastasis. © 2013 Wiley Periodicals, Inc.