Miracle-dz/UniFAR-FTUs huggingface dataset:
Parental alcohol use and risk of behavioral and emotional problems in offspring

Objective The majority of studies that have examined parental alcohol use and offspring outcomes have either focused on exposure in the antenatal period or from clinical populations. This study sought to examine proximal and distal associations between parental alcohol use and offspring conduct problems and depressive symptoms in a population birth cohort. Methods We used prospective data from a large UK based population cohort (ALSPAC) to investigate the association between parental alcohol use, measured in units, (assessed at ages 4 and 12 years) with childhood conduct trajectories, (assessed on six occasions from 4 to 13.5 years, n = 6,927), and adolescent depressive symptoms (assessed on four occasions from ~13 to ~18 years, n = 5,539). Heavy drinking was defined as ≥21 units per week in mothers and partners who drank 4+ units daily. Results We found little evidence to support a dose response association between parental alcohol use and offspring outcomes. For example, we found insufficient evidence to support an association between maternal alcohol use at age 4 years and childhood conduct problems (childhood limited: OR = 1.00, 95% CI = .99, 1.01; adolescent onset: OR = 0.99, 95% CI = .98, 1.00; and early-onset persistent: OR = 0.99, 95% CI = .98, 1.00) per 1-unit change in maternal alcohol use compared to those with low levels of conduct problems. We also found insufficient evidence to support an association between maternal alcohol use at age 4 years and adolescent depressive symptoms (intercept: b = .001, 95% CI = -.01, .01, and slope: b = .003, 95% CI = -.03, .03) per 1-unit change in maternal alcohol use. Results remained consistent across amount of alcohol consumed (i.e., number of alcohol units or heavy alcohol use), parent (maternal self-reports or maternal reports of partner’s alcohol use), and timing of alcohol use (assessed at age 4 or age 12 years). Conclusions There is no support for an association between parental alcohol use during childhood and conduct and emotional problems during childhood or adolescence.
Abstracting the Differential Semantics of Rule-Based Models: Exact and Automated Model Reduction

Rule-based approaches (as in our own Kappa, or the BNG language, or many other propositions allowing the consideration of "reaction classes'') offer new and more powerful ways to capture the combinatorial interactions that are typical of molecular biological systems. They afford relatively compact and faithful descriptions of cellular interaction networks despite the combination of two broad types of interaction: the formation of complexes (a biological term for the ubiquitous non-covalent binding of bio-molecules), and the chemical modifications of macromolecules (aka post-translational modifications). However, all is not perfect. This same combinatorial explosion that pervades biological systems also seems to prevent the simulation of molecular networks using systems of differential equations. In all but the simplest cases the generation (and even more the integration) of the explicit system of differential equations which is canonically associated to a rule set is unfeasible. So there seems to be a price to pay for this increase in clarity and precision of the description, namely that one can only execute such rule-based systems using their stochastic semantics as continuous time Markov chains, which means a slower if more accurate simulation. In this paper, we take a fresh look at this question, and, using techniques from the abstract interpretation framework, we construct a reduction method which generates (typically) far smaller systems of differential equations than the concrete/canonical one. We show that the abstract/reduced differential system has solutions which are linear combinations of the canonical ones. Importantly, our method: 1) does not require the concrete system to be explicitly computed, so it is intensional, 2) nor does it rely on the choice of a specific set of rate constants for the system to be reduced, so it is symbolic, and 3) achieves good compression when tested on rule-based models of significant size, so it is also realistic.
Is bigger always better? A critical appraisal of the use of volumetric analysis in the study of the hippocampus

A well-developed spatial memory is important for many animals, but appears especially important for scatter-hoarding species. Consequently, the scatter-hoarding system provides an excellent paradigm in which to study the integrative aspects of memory use within an ecological and evolutionary framework. One of the main tenets of this paradigm is that selection for enhanced spatial memory for cache locations should specialize the brain areas involved in memory. One such brain area is the hippocampus (Hp). Many studies have examined this adaptive specialization hypothesis, typically relating spatial memory to Hp volume. However, it is unclear how the volume of the Hp is related to its function for spatial memory. Thus, the goal of this article is to evaluate volume as a main measurement of the degree of morphological and physiological adaptation of the Hp as it relates to memory. We will briefly review the evidence for the specialization of memory in food-hoarding animals and discuss the philosophy behind volume as the main currency. We will then examine the problems associated with this approach, attempting to understand the advantages and limitations of using volume and discuss alternatives that might yield more specific hypotheses. Overall, there is strong evidence that the Hp is involved in the specialization of spatial memory in scatter-hoarding animals. However, volume may be only a coarse proxy for more relevant and subtle changes in the structure of the brain underlying changes in behaviour. To better understand the nature of this brain/memory relationship, we suggest focusing on more specific and relevant features of the Hp, such as the number or size of neurons, variation in connectivity depending on dendritic and axonal arborization and the number of synapses. These should generate more specific hypotheses derived from a solid theoretical background and should provide a better understanding of both neural mechanisms of memory and their evolution.
Weak arithmetical interpretations for the Logic of Proofs

Artemov established an arithmetical interpretation for the Logics of Proofs LPCS, which yields a classical provability semantics for the modal logic S4. These Logics of Proofs are parameterized by so-called constant specifications CS that state which axioms can be used in the reasoning process, and the arithmetical interpretation relies on the constant specifications being finite. In this paper, we remove this restriction by introducing weak arithmetical interpretations that are sound and complete for a wide class of constant specifications, including infinite ones. In particular, they interpret the full Logic of Proofs LP.
On the asymptotic eigenvalue distribution of concatenated vector-valued fading channels

The linear vector-valued channel + with and denoting additive white Gaussian noise and independent random matrices, respectively, is analyzed in the asymptotic regime as the dimensions of the matrices and vectors involved become large. The asymptotic eigenvalue distribution of the channel’s covariance matrix is given in terms of an implicit equation for its Stieltjes transform as well as an explicit expression for its moments. Additionally, almost all eigenvalues are shown to converge toward zero as the number of factors grows over all bounds. This effect cumulates the total energy in a vanishing number of dimensions. The channel model addressed generalizes the model introduced in [1] for communication via large antenna arrays to -fold scattering per propagation path. As a byproduct, the multiplicative free convolution is shown to extend to a certain class of asymptotically large non-Gaussian random covariance matrices.
Wetting and Interfacial Reaction Investigations of Coke/Slag Systems and Associated Liquid Permeability of Blast Furnaces

An interfacial study between metallurgical coke and synthetic slags representing typical slag chemistry of bosh regions of an operating blast furnace was conducted at 1500°C using a horizontal laboratory furnace. The wetting characteristics of coke with slag was studied by measuring dynamic contact angle of sessile droplet of slag on coke substrate, while reaction kinetics of interface was monitored by measuring the amount of CO and CO2 gases with the help of infrared analyzer. The interface chemistry was also examined by SEM/EDS/EPMA. The study demonstrated that coke wettability was strongly dependent both on the slag composition as well as coke chemistry such that low basicity (CaO/SiO2) of slag, that is high amounts of oxides of silicon enhanced the wetting propensity of slag. The study further showed that the wettability of coke with slag was found to improve with increased extent of gasification, and was attributed to higher ash content of partially gasified cokes. The CO/CO2 measurements of off gases from the reacting chamber were used to demonstrate that slag wettability with coke was primarily controlled by the kinetics of reduction of metal oxides at the slag/coke interface particularly that of silica. The study demonstrates that in addition to slag composition, coke properties could also influence the liquid permeability of lower zone of the blast furnace, and hence needs attention while optimizing the bosh slag composition for high productivity blast furnace operation.
Extension of the Weil-Petersson connection

Convexity properties of Weil-Petersson geodesics on the Teichm\"{u}ller space of punctured Riemann surfaces are investigated. A normal form is presented for the Weil-Petersson Levi-Civita connection for pinched hyperbolic metrics. The normal form is used to establish approximation of geodesics in boundary spaces. Considerations are combined to establish convexity along Weil-Petersson geodesics of the functions the distance between horocycles for a hyperbolic metric.
Speech enhancement using segmental nonnegative matrix factorization

The conventional NMF-based speech enhancement algorithm analyzes the magnitude spectrograms of both clean speech and noise in the training data via NMF and estimates a set of spectral basis vectors. These basis vectors are used to span a space to approximate the magnitude spectrogram of the noise-corrupted testing utterances. Finally, the components associated with the clean-speech spectral basis vectors are used to construct the updated magnitude spectrogram, producing an enhanced speech utterance. Considering that the rich spectral-temporal structure may be explored in local frequency and time-varying spectral patches, this study proposes a segmental NMF (SNMF) speech enhancement scheme to improve the conventional frame-wise NMF-based method. Two algorithms are derived to decompose the original nonnegative matrix associated with the magnitude spectrogram; the first algorithm is used in the spectral domain and the second algorithm is used in the temporal domain. When using the decomposition processes, noisy speech signals can be modeled more precisely, and spectrograms regarding the speech part can be constituted more favorably compared with using the conventional NMF-based method. Objective evaluations using perceptual evaluation of speech quality (PESQ) indicate that the proposed SNMF strategy increases the sound quality in noise conditions and outperforms the well-known MMSE log-spectral amplitude (LSA) estimation.
Sparsity issues in the computation of Jacobian matrices

The knowledge of sparsity information plays an important role in efficient determination of sparse Jacobian matrices. In a recent work, we have proposed sparsity-exploiting substitution techniques to determine Jacobian matrices. In this paper, we take a closer look at the underlying combinatorial problem. We propose a column ordering heuristic to augment the "usable sparsity" in the Jacobian matrix. Furthermore, we present a new elimination technique based on merging of successive columns.
University of Groningen Determinants of social participation of visually impaired older adults

Purpose To assess determinants of social participation among visually impaired older adults. Methods This cross-sectional study included visually impaired persons (C55 years; n = 173) who were referred to a low-vision rehabilitation center. Determinants (i.e., sociodemographic, physical, social and psychological factors, and personal values) of participation were identified in four domains of participation: (1) domestic life; (2) interpersonal interactions and relationships; (3) major life areas; and (4) community, social, and civic life. Study participants completed telephone interviews. Results Age, physical fitness, and helplessness were determinants of participation in domestic life. Social network size was associated with participation in major life areas. The personal value attached to participation (i.e., perceived importance) was a determinant of participation in interpersonal interactions and relationships, major life areas, and community, social and civic life. Vision-related characteristics (i.e., self-perceived vision and degree of visual impairment) were not associated with participation. Conclusions Across the participation domains, perceived importance is a major determinant of social participation among visually impaired older adults. Physical health along with social and psychological status, also affect participation. Knowing how participation is determined can be used to develop rehabilitation interventions to enhance participation of visually impaired older adults.
Rice OsYSL15 Is an Iron-regulated Iron(III)-Deoxymugineic Acid Transporter Expressed in the Roots and Is Essential for Iron Uptake in Early Growth of the Seedlings*

Graminaceous plants take up iron through YS1 (yellow stripe 1) and YS1-like (YSL) transporters using iron-chelating compounds known as mugineic acid family phytosiderophores. We examined the expression of 18 rice (Oryza sativa L.) YSL genes (OsYSL1-18) in the epidermis/exodermis, cortex, and stele of rice roots. Expression of OsYSL15 in root epidermis and stele was induced by iron deficiency and showed daily fluctuation. OsYSL15 restored a yeast mutant defective in iron uptake when supplied with iron(III)-deoxymugineic acid and transported iron(III)-deoxymugineic acid in Xenopus laevis oocytes. An OsYSL15-green fluorescent protein fusion was localized to the plasma membrane when transiently expressed in onion epidermal cells. OsYSL15 promoter-β-glucuronidase analysis revealed that OsYSL15 expression in roots was dominant in the epidermis/exodermis and phloem cells under conditions of iron deficiency and was detected only in phloem under iron sufficiency. These results strongly suggest that OsYSL15 is the dominant iron(III)-deoxymugineic acid transporter responsible for iron uptake from the rhizosphere and is also responsible for phloem transport of iron. OsYSL15 was also expressed in flowers, developing seeds, and in the embryonic scutellar epithelial cells during seed germination. OsYSL15 knockdown seedlings showed severe arrest in germination and early growth and were rescued by high iron supply. These results demonstrate that rice OsYSL15 plays a crucial role in iron homeostasis during the early stages of growth.
Defining the boundaries: Rab GEFs and GAPs

Rab proteins are key regulators of membrane traffic (1, 2). The human genome encodes almost 70 Rabs (3); baker's yeast encodes just 11 (4). These small GTPases located on the cytoplasmic surfaces of membrane compartments recruit to those membranes distinct sets of cytosolic proteins (“effectors”). Recruitment ofRab-specific effectors defines a compartment's functional identity because those proteins work in concert with Rabs to form transport vesicles, link vesicles to motor proteins, and dock and fuse vesicles with their targets (1, 2). A fundamental question is how each Rab-specified compartment remains unique—-in other words, what keeps Rabs from mixing with one another on a membrane surface, and how might functional microdomains confer directionality to membrane traffic? A study in this issue of PNAS (5) shows that a Rab protein that functions in the yeast secretory pathway can inactivate an earlier-acting Rab by recruiting its cognate GTPase-activating protein (GAP). This process was shown to help delineate boundaries between Rab GTPases on membranes.
Minimum transverse reinforcement for bottle-shaped struts

This paper investigates the amount of transverse reinforcement needed to resist the tension developed in a bottle-shaped strut. Bottle-shaped struts are wider at their midpoint than at either end. As the struts widen near the midpoint, tensile stresses transverse to the direction of compression are developed. Reinforcement must be placed within the strut to carry this transverse tension. An expression for the required transverse reinforcement was developed and a database of 476 test specimens was used to evaluate these equilibrium-based equations along with a series of three tests of deep beams. The strut efficiency factors presented in Appendix A of ACI 318-05 were used in this evaluation. The shortcomings of current ACI 318-05 provisions that allow the design of a deep beam without any shear reinforcement are discussed. The amount of transverse reinforcement required to maintain equilibrium in a bottle-shaped strut is proportional to the force applied to the strut and inversely proportional to the slope of the angle of dispersion. These findings suggest that additional research regarding the serviceability of structures designed using strut-and-tie provisions is needed.
Text document categorization by term association

A good text classifier is a classifier that efficiently categorizes large sets of text documents in a reasonable time frame and with an acceptable accuracy, and that provides classification rules that are human readable for possible fine-tuning. If the training of the classifier is also quick, this could become in some application domains a good asset for the classifier. Many techniques and algorithms for automatic text categorization have been devised. According to published literature, some are more accurate than others, and some provide more interpretable classification models than others. However, none can combine all the beneficial properties enumerated above. In this paper we present a novel approach for automatic text categorization that borrows from market basket analysis techniques using association rule mining in the data-mining field. We focus on two major problems: (1) finding the best term association rules in a textual database by generating and pruning; and (2) using the rules to build a text classifier. Our text categorization method proves to be efficient and effective, and experiments on well-known collections show that the classifier performs well. In addition, training as well as classification are both fast and the generated rules are human readable.
Response to Comments on “Changes in Climatic Water Balance Drive Downhill Shifts in Plant Species’ Optimum Elevations”

Wolf and Anderegg, Hijmans, and Stephenson and Das suggest that our findings of changes in climatic water balance driving downhill shifts in plant species distributions are flawed. We demonstrate that the conclusions these authors make are subject to the selection of methods they apply and do not provide sufficient evidence to reject our original findings.
Path Creation as a Process of Mindful Deviation

Entrepreneurs are embedded in structures from which they attempt to depart. It is to explicate this notion of agency that the authors offer path creation as a concept that lies in contrast to path dependence. Path dependence celebrates the role of chance historical events in shaping the flow of future events. Such a process perspective takes an outsider's view to the genesis of novelty. In contrast, path creators are boundary spanners who disregard myopic pressures from existing relevance structures by making mindful deviations with objects to create new futures. Time is a critical element in this process. Specifically, path creators negotiate the time required for their initiatives to mature and succeed. In doing so, they harness the dynamic efficiencies implicit in adopting a perspective that views the emergence of novelty ex-vizu of a point in time.
Negative Interference by Rheumatoid Factor of Plasma B-Type Natriuretic Peptide in Chemiluminescent Microparticle Immunoassays

Background The chemiluminescent microparticle immunoassay (CMIA) is widely used for the quantitative determination of B-type natriuretic peptide (BNP) in human ethylenediaminetetraacetic acid plasma. Rheumatoid factor (RF) is usually thought to result in a positive interference in immunoassays, but it is not clear whether its presence in plasma can lead to interferences in the CMIA of BNP. Methods The estimation of BNP recovery was carried out by diluting high-concentration BNP samples with RF-positive or RF-negative plasma at a ratio of 1∶9. The diluted samples were then tested using the ARCHITECT i2000 System and ARCHITECT BNP Reagent Kits and the recovery was then calculated. Results When the RF level ranged from 48 to 1420 IU/mL, the average recovery of BNP was 79.29% and 91.61% in the RF-positive and RF-negative plasma samples, respectively, and was thus significantly lower in the group of RF-positive plasma samples than in the group of RF-negative plasma samples. At a dilution of 1∶16, the measured BNP level increased by >36% in six of the seven RF-positive plasma samples. The recovery of BNP increased significantly in the RF-positive plasma samples after pretreatment with IgG-sensitive latex particles. In addition, The BNP recovery was not significantly related to the plasma RF at concentrations ranging from 48 to 2720 IU/mL. Conclusions Measurement of BNP by CMIA is susceptible to interference from RF leading to predominantly (but not exclusively) lower results. Pretreatment of samples with blocking reagents is advisable prior to the initiation of denying patient's necessary treatment.
The Unitary Model for Estrogen Deficiency and the Pathogenesis of Osteoporosis: Is a Revision Needed?

Over a decade ago, we proposed a “unitary” model for the pathogenesis of osteoporosis that identified estrogen deficiency as the predominant cause of both the early, accelerated, and late slow phases of bone loss in postmenopausal women and as a contributing cause of the continuous phase of bone loss in aging men. While this was a plausible model then, new data over the intervening years suggest a need to modify these concepts. Indeed, based largely on rodent studies, a “revisionist” view of the pathogenesis of osteoporosis has been proposed recently that attempts a paradigm shift from the estrogen‐centric model to one in which bone loss is largely independent of estrogen deficiency and is driven instead by cell‐autonomous age‐related factors. However, detailed clinical investigative studies using quantitative computed tomography demonstrate that the onset of cortical bone loss in humans is closely tied to estrogen deficiency; thus the estrogen‐centric view is likely correct for cortical bone, which comprises over 80% of the skeleton and is the major structural determinant of fracture risk at most skeletal sites. By contrast, these same studies also demonstrate that trabecular bone loss begins in sex hormone–replete young adults of both sexes. This suggests that a significant proportion of trabecular bone loss is either estrogen‐independent or, as suggested by some studies, requires higher levels for its regulation. In this perspective, we critically review these and other findings, leading us to conclude that our original model requires modification but not revision. © 2011 American Society for Bone and Mineral Research.