Miracle-dz/UniFAR-FTUs huggingface dataset:
Structure of Vps75 and implications for histone chaperone function

The vacuolar protein sorting 75 (Vps75) histone chaperone participates in chromatin assembly and disassembly at both active and inactive genes through the preferential binding to histone H3–H4. Vps75 is also one of two histone chaperones, along with antisilencing factor 1, that promotes histone H3-Lys-56 acetylation by the regulation of Ty1 transposition protein 109 (Rtt109) histone acetyltransferase. Here, we report the x-ray crystal structure of Vps75 and carry out biochemical studies to characterize its interaction with Rtt109. We find that the Vps75 structure forms a homodimeric “headphone” architecture that includes an extended helical dimerization domain and earmuff domains at opposite ends and sides of the dimerization domain. Despite the similar overall architecture with the yeast nucleosome assembly protein 1 and human SET/TAF-1β/INHAT histone chaperones, Vps75 shows several unique features including the relative disposition of the earmuff domains to the dimerization domain, characteristics of the earmuff domains, and a pronounced cleft at the center of the Vps75 dimer. These differences appear to correlate with the unique function of Vps75 to interact with Rtt109 for histone acetylation. Our biochemical studies reveal that two surfaces on the earmuff domain of Vps75 participate in Rtt109 interaction with a stoichiometry of 2:1, thus leaving the pronounced central cleft of the Vps75 dimer largely accessible for histone binding. Taken together, our data provide a structural framework for understanding how Vps75 mediates both nucleosome assembly and histone acetylation by Rtt109.
A 23-to-29 GHz Transconductor-Tuned VCO MMIC in 0.13 $\mu$m CMOS

A transconductor-tuned 23-to-29 GHz wideband VCO is implemented in 0.13-mum CMOS technology. Tuning is accomplished by exploiting the 90deg phase shift across a transcon- ductor. The frequency is continuously tunable with differential and common-mode ranges of 23.6% and 3.3%, respectively, using a 1.5-V (maximum) single-ended tuning voltage. Measured phase noise at 26 GHz is -92.6 dBc/Hz for 1-MHz frequency offset. The 0.3 x 0.4 mm2 VCO consumes a total of 43 mW from a 1.2-V supply. The open-drain output buffer delivers -11 dBm single-ended to a 50-Omega load, while consuming 6.5 mW at 1.2 V.
Enhancement of Bio-Protective Functions by Low Dose/Dose-Rate Radiation

Effects of low-dose-rate gamma-irradiation on the process of tumorigenesis were investigated in mice treated with a carcinogenic agent or irradiated with high dose X-rays at a high dose rate. A prolonged gamma irradiation at approximately 1 mGy/hr suppressed the appearance of skin tumors induced by methylcholanthrene and delayed the appearance of radiation-induced thymic lymphomas in C57BL/6 mice. We also investigated the effects of low-dose-rate irradiation on disease model mice. In Type II diabetic C57BL/KsJ-db/db (db) mice, the urine glucose level was improved in some of the mice irradiated at 0.70 mGy/hr, but not in non-irradiated control mice. In MRL-lpr/lpr (lpr) mice with severe autoimmune diseases, immunological status was kept better in the mice irradiated at 0.35 or 1.2 mGy/hr. The incidence of a number of symptoms, including lymphadenopathy, splenomegaly and proteinuria, was suppressed by the irradiation. Furthermore, in both of the strains, the low-dose-rate irradiation prolonged the life span of the irradiated mice.
Entrepreneurial Self–Efficacy: Refining the Measure

A growing number of studies on entrepreneurial motivation, intentions, and behavior include entrepreneurial self–efficacy (ESE) as an explanatory variable. While there is broad consensus among researchers on the importance of including ESE in an intentionality model, there remain inconsistencies in the definition, dimensionality, and measurement of ESE. This study takes an important step toward refinement and standardization of ESE measurement. Within a new venture creation process framework, a multi–dimensional ESE instrument is developed and tested on a diverse sample that includes nascent entrepreneurs. Implications for entrepreneurship theory and entrepreneurship education are discussed.
A note on one-way functions and polynomial-time isomorphisms

It is shown that if one-way functions exist, then there are sets A and B such that A and B are equivalent under one-one and length-increasing polynomial-time reductions, and such that A is not polynomial-time isomorphic to B. Furthermore, sets A and B can be constructed such that they are polynomial-time truth-table complete for the class of exponential-time computable sets.
10-28-2014 Using Cash Flow Dynamics to Price Thinly Traded Assets : The Case of Commercial Real Estate

Previous studies of share repurchase have primarily focused on examining announcement effects and longterm operating performance in order to distinguish among the diverse possible hypotheses for repurchase. One of the most important rationales they have studied is the over-investment hypothesis: firms repurchase in order to avoid investing in negative net present value projects. While the recent empirical analyses have presented some indirect evidence in support of the over-investment hypothesis, this study examines this rationale for repurchase from a unique perspective, empirically showing that project returns have an important influence on the decision to repurchase shares. Our sample of firms consists of 125 real estate investment trusts (REITs) in order to utilize a time series of real estate capitalization rates (property ROAs) from market transactions on different property types. These cap rates proxy for a REIT’s project opportunity set. Using a both Logit and Tobit models that corrects for other possible buyback rationales, we show that during periods with relatively low cap rates, REITs are more likely to both repurchase shares and repurchase larger amounts of shares than when cap rates are high.
Role of Anopheles culicifacies s.l. and An. pulcherrimus in malaria transmission in Ghassreghand (Baluchistan), Iran.

A 2-site immunoradiometric assay (IRMA) was performed on the head and thorax of Anopheles culicifacies s.l. and An. pulcherrimus females, the 2 most common anopheline species in the District of Ghassreghand (Baluchistan, Iran), collected during the 2 peak malaria transmission seasons (May and September-October 1991). Positive IRMA results revealed the 2 species as potential vectors of malaria in this highly endemic district. This finding serves as the first report on natural infection of An. pulcherrimus in Iran and is the second on natural infection of An. culicifacies since the previous report of 1959.
Discrete multitone modulation with principal component filter banks

Discrete multitone (DMT) modulation is an attractive method for communication over a nonflat channel with possibly colored noise. The uniform discrete Fourier transform (DFT) filter bank and cosine modulated filter bank have in the past been used in this system because of low complexity. We show in this paper that principal component filter banks (PCFB) which are known to be optimal for data compression and denoising applications, are also optimal for a number of criteria in DMT modulation communication. For example, the PCFB of the effective channel noise power spectrum (noise psd weighted by the inverse of the channel gain) is optimal for DMT modulation in the sense of maximizing bit rate for fixed power and error probabilities. We also establish an optimality property of the PCFB when scalar prefilters and postfilters are used around the channel. The difference between the PCFB and a traditional filter bank such as the brickwall filter bank or DFT filter bank is significant for effective power spectra which depart considerably from monotonicity. The twisted pair channel with its bridged taps, next and fext noises, and AM interference, therefore appears to be a good candidate for the application of a PCFB. This is demonstrated with the help of numerical results for the case of the ADSL channel.
Ferritin in serum: diagnosis of iron deficiency and iron overload in infants and children.

Ferritin in serum was quantitated by radioimmunoassay to determine the usefulness of this assay in reflecting iron stores during normal development and in the diagnosis of iron deficiency and iron overload in infants and children. In the adult, serum ferritin has been reported to correspond to the magnitude of iron stores throughout a wide range. In 573 normal infants and children, we found the concentration of serum ferritin to parallel known changes in iron stores during development. The median serum ferritin concentration was 101 ng/ml at birth, rose to 356 ng/ml at 1 mo of age, and then fell rapidly to a median value near 30 ng/ml (95% confidence limits: 7-142 ng/ml) between 6 mo and 15 yr of age. In the adult, median concentrations diverged according to sex, 39 ng/ml in the female and 140 ng/ml in the male. In 13 children with iron-deficiency anemia, the serum ferritin concentration was 9 ng/ml or less. Overlap with the normal population was small, and no conditions were found to give "false" low values. In children with β-thalassemia major and sickle cell anemia, median values were elevated to 850 and 160 ng/ml, respectively. Possibly misleading, elevated values were obtained in some patients with acute infection and in acute lymphoblastic leukemia. The serum ferritin assay promises to be a useful tool in the evaluation of iron status, particularly in children.
Adaptive integration of habits into depth-limited planning defines a habitual-goal–directed spectrum

Significance Solving complex tasks often requires estimates of the future consequences of current actions. Estimates could be learned from past experience, but they then risk being out of date, or they could be calculated by a form of planning into the future, a process that is computationally taxing. We show that humans integrate learned estimates into their planning calculations, saving mental effort and time. We also show that increasing time pressure leads to reliance on learned estimates after fewer steps of planning. We suggest a normative rationale for this effect using a computational model. Our results provide a perspective on how the brain combines different decision processes collaboratively to exploit their comparative computational advantages. Behavioral and neural evidence reveal a prospective goal-directed decision process that relies on mental simulation of the environment, and a retrospective habitual process that caches returns previously garnered from available choices. Artificial systems combine the two by simulating the environment up to some depth and then exploiting habitual values as proxies for consequences that may arise in the further future. Using a three-step task, we provide evidence that human subjects use such a normative plan-until-habit strategy, implying a spectrum of approaches that interpolates between habitual and goal-directed responding. We found that increasing time pressure led to shallower goal-directed planning, suggesting that a speed-accuracy tradeoff controls the depth of planning with deeper search leading to more accurate evaluation, at the cost of slower decision-making. We conclude that subjects integrate habit-based cached values directly into goal-directed evaluations in a normative manner.
The chicken or the egg: PHEX, FGF23 and SIBLINGs unscrambled

The eggshell is an ancient innovation that helped the vertebrates' transition from the oceans and gain dominion over the land. Coincident with this conquest, several new eggshell and noncollagenous bone‐matrix proteins (NCPs) emerged. The protein ovocleidin‐116 is one of these proteins with an ancestry stretching back to the Triassic. Ovocleidin‐116 is an avian homolog of Matrix Extracellular Phosphoglycoprotein (MEPE) and belongs to a group of proteins called Small Integrin‐Binding Ligand Interacting Glycoproteins (SIBLINGs). The genes for these NCPs are all clustered on chromosome 5q in mice and chromosome 4q in humans. A unifying feature of the SIBLING proteins is an Acidic Serine Aspartate‐Rich MEPE (ASARM)‐associated motif. The ASARM motif and the released ASARM peptide play roles in mineralization, bone turnover, mechanotransduction, phosphate regulation and energy metabolism. ASARM peptides and motifs are physiological substrates for phosphate‐regulating gene with homologies to endopeptidases on the X chromosome (PHEX), a Zn metalloendopeptidase. Defects in PHEX are responsible for X‐linked hypophosphatemic rickets. PHEX interacts with another ASARM motif containing SIBLING protein, Dentin Matrix Protein‐1 (DMP1). DMP1 mutations cause bone‐renal defects that are identical with the defects caused by loss of PHEX function. This results in autosomal recessive hypophosphatemic rickets (ARHR). In both X‐linked hypophosphatemic rickets and ARHR, increased fibroblast growth factor 23 (FGF23) expression occurs, and activating mutations in FGF23 cause autosomal dominant hypophosphatemic rickets (ADHR). ASARM peptide administration in vitro and in vivo also induces increased FGF23 expression. This review will discuss the evidence for a new integrative pathway involved in bone formation, bone‐renal mineralization, renal phosphate homeostasis and energy metabolism in disease and health. Copyright © 2012 John Wiley & Sons, Ltd.
An emerging body of empirical scholarship concerned with the coupled interactions between human and natural water resources in different regions of the world [

[1] Freshwater scarcity has been cited as the major crisis of the 21st century, but it is surprisingly hard to describe the nature of the global water crisis. We conducted a metaanalysis of 22 coupled human–water system case studies, using qualitative comparison analysis (QCA) to identify water resource system outcomes and the factors that drive them. The cases exhibited different outcomes for human wellbeing that could be grouped into a six “syndromes”: groundwater depletion, ecological destruction, drought-driven conflicts, unmet subsistence needs, resource capture by elite, and water reallocation to nature. For syndromes that were not successful adaptations, three characteristics gave cause for concern: (1) unsustainability—a decline in the water stock or ecosystem function that could result in a long-term steep decline in future human wellbeing; (2) vulnerability—high variability in water resource availability combined with inadequate coping capacity, leading to temporary drops in human wellbeing; (3) chronic scarcity—persistent inadequate access and hence low conditions of human wellbeing. All syndromes could be explained by a limited set of causal factors that fell into four categories: demand changes, supply changes, governance systems, and infrastructure/technology. By considering basins as members of syndrome classes and tracing common causal pathways of water crises, water resource analysts and planners might develop improved water policies aimed at reducing vulnerability, inequity, and unsustainability of freshwater systems.
Browsing Traffic Performance in TDMA Mesh Networks

TDMA based wireless mesh networks have gained prominence as some of the recent standards such as WiMAX and 802.11s have proposed the use of TDMA based MAC protocol for mesh networks. Even though HTTP web browsing traffic constitutes a significant percentage of Internet traffic, but as of yet there have been no attempts to study the performance of HTTP based web browsing traffic in TDMA mesh networks. HTTP web browsing traffic has different characteristics compared with other types of traffic. In particular, as HTTP traffic consists of large number of small sized file transfers (median file size is 10KB), it can impose high scheduling overhead. As we highlight, HTTP traffic requires that RTT (round trip time) be small and also it requires that large sized flows be allocated higher share of bandwidth. Given these characteristics of HTTP traffic, it is not clear what protocol design for TDMA mesh networks performs best. In this work we have studied the performance comparison of four different TDMA MAC protocols for HTTP web browsing traffic. Two of these protocols follow distributed scheduling, one centralized and the other naive static fixed schedule approach. We have evaluated the performance of the four protocols for varying load, in different wireless packet loss conditions, for single as well as multi-channel operation and in presence versus absence of large HTTP file downloads. A crucial aspect that our results point out is that the two distributed protocols specified by the recent WiMAX and 802.11s standards, are incapable of handling wireless packet loss and perform poorly in presence of large HTTP file downloads. Likewise the static approach performs poorly under high load and single channel operation. As against this, the centralized protocol performs well for the different experiment cases that we have considered. However our analysis reveals that the performance of the centralized protocol can be further improved if we eliminate the flow set-up phase and minimize the delay in propagating the TDMA schedule. Likewise we carry out required modifications to the centralized protocol and observe that the performance of the modified protocol, which we term as the sf-centralized (set-up free centralized) protocol, improves by as much as 19% under moderate load and 47% under high load.
Ordinal Regression by a Generalized Force-Based Model

This paper introduces a new instance-based algorithm for multiclass classification problems where the classes have a natural order. The proposed algorithm extends the state-of-the-art gravitational models by generalizing the scaling behavior of the class-pattern interaction force. Like the other gravitational models, the proposed algorithm classifies new patterns by comparing the magnitude of the force that each class exerts on a given pattern. To address ordinal problems, the algorithm assumes that, given a pattern, the forces associated to each class follow a unimodal distribution. For this reason, a weight matrix that allows to modify the metric in the attributes space and a vector of parameters that allows to modify the force law for each class have been introduced in the model definition. Furthermore, a probabilistic formulation of the error function allows the estimation of the model parameters using global and local optimization procedures toward minimization of the errors and penalization of the non unimodal outputs. One of the strengths of the model is its competitive grade of interpretability which is a requisite in most of real applications. The proposed algorithm is compared to other well-known ordinal regression algorithms on discretized regression datasets and real ordinal regression datasets. Experimental results demonstrate that the proposed algorithm can achieve competitive generalization performance and it is validated using nonparametric statistical tests.
NODAS 1.3 - Nodal Design Of Actuators And Sensors

A circuit-level methodology for top-down hierarchical design and nodal simulation of microelectromechanical systems (MEMS) is presented. An abstract layout view is introduced as a geometrically intuitive MEMS representation that is transformed into a schematic suitable for behavioral simulation. Suspended-MEMS inertial sensors, resonant actuators and filters are designed using a small set of geometrically parameterized plate, beam, gap and anchor elements. Effects of manufacturing variations are evaluated by simply changing parameter values of the elements.
The Born-Einstein Letters

Wilcox et al. (1 3 Apr., p. 185), show a convincing relation between the solar magnetic sector structure and the earth's meteorological activity as indicated by vorticity at the 300-millibar level. Is it possible that this interesting correlation may in some way be related to Markson's observation (1) that there is a maximum in thunderstorm activity when the earth is at the leading edge of a negative solar structure? B. VONNEGUT Atinospheric Sciences Research Center, State University of New York, Albany 12222
Chapter 6. Reading for sound and reading for meaning in autism: Frith and Snowling (1983) revisited

In their classic 1983 study, Frith and Snowling reported evidence for a dissociation in autism between intact semantic processing of single words, but relative difficulty on tests of sentence or paragraph comprehension. Here, we revisit the 7 experiments in Frith and Snowling’s paper, in the light of the several dozen subsequent studies that have sought to replicate or extend their findings. We note that Frith and Snowling’s results have stood the test of time remarkably well. There is, however, converging evidence that many of the semantic impairments previously considered to be “autism specific” may in fact be better accounted for by co-occurring language impairment.
Identification of dopamine receptors across the extant avian family tree and analysis with other clades uncovers a polyploid expansion among vertebrates

Dopamine is an important central nervous system transmitter that functions through two classes of receptors (D1 and D2) to influence a diverse range of biological processes in vertebrates. With roles in regulating neural activity, behavior, and gene expression, there has been great interest in understanding the function and evolution dopamine and its receptors. In this study, we use a combination of sequence analyses, microsynteny analyses, and phylogenetic relationships to identify and characterize both the D1 (DRD1A, DRD1B, DRD1C, and DRD1E) and D2 (DRD2, DRD3, and DRD4) dopamine receptor gene families in 43 recently sequenced bird genomes representing the major ordinal lineages across the avian family tree. We show that the common ancestor of all birds possessed at least seven D1 and D2 receptors, followed by subsequent independent losses in some lineages of modern birds. Through comparisons with other vertebrate and invertebrate species we show that two of the D1 receptors, DRD1A and DRD1B, and two of the D2 receptors, DRD2 and DRD3, originated from a whole genome duplication event early in the vertebrate lineage, providing the first conclusive evidence of the origin of these highly conserved receptors. Our findings provide insight into the evolutionary development of an important modulatory component of the central nervous system in vertebrates, and will help further unravel the complex evolutionary and functional relationships among dopamine receptors.
Effects of Delay in the Snap Freezing of Colorectal Cancer Tissues on the Quality of DNA and RNA

PURPOSE The success of basic molecular research using biospecimens strongly depends on the quality of the specimen. In this study, we evaluated the effects of delayed freezing time on the stability of DNA and RNA in fresh frozen tissue from patients with colorectal cancer. METHODS Tissues were frozen at 10, 30, 60, and 90 minutes after extirpation of colorectal cancer in 20 cases. Absorbance ratio of 260 to 280 nm (A(260)/A(280)) and agarose gel electrophoresis were evaluated. In addition, the RNA integrity number (RIN) was assayed for the analysis of the RNA integrity. RESULTS Regardless of delayed freezing time, all DNA and RNA samples revealed A(260)/A(280) ratios of more than 1.9, and all DNA samples showed a discrete, high-molecular-weight band on agarose gel electrophoresis. The RINs were 7.53 ± 2.04, 6.70 ± 1.88, 6.47 ± 2.58, and 4.22 ± 2.34 at 10, 30, 60, and 90 minutes, respectively. Though the concentration of RNA was not affected by delayed freezing, the RNA integrity was decreased with increasing delayed freezing time. CONCLUSION According to the RIN results, we recommend that the collection of colorectal cancer tissue should be done within 10 minutes for studies requiring RNA of high quality and within 30 minutes for usual RNA studies.