Miracle-dz/UniFAR-FTUs huggingface dataset:
Biological activity of polyoma viral DNA in mice and hamsters

The biological activity of polyoma viral DNA was evaluated in mice and hamsters. Viral DNA administered parenterally is about 4 to 5 logs less efficient than polyoma virions in establishing infection in mice. Supercoiled viral DNA was infectious for mice after parenteral administration, giving mean infective doses of 10(-3) to 10(-4) microgram. However, animals fed microgram quantities of polyoma DNA I did not become infected. Linearization of viral DNA with R.EcoRI or R.BamHI, which are single-cut enzymes cleaving in the early and late regions of the genome, respectively, reduced the infectivity for mice approximately fivefold. Approximately 10% of newborn hamsters inoculated intraperitoneally with polyoma DNA I developed tumors. In contrast, the same amount of viral DNA which had been cleaved in the early region with R.EcoRI induced tumors in 50% of inoculated hamsters.
An experimental comparison of a hierarchical range image segmentation algorithm

This paper describe a new algorithm to segment range images into continuous regions represented by Bezier polynomials. The main problem in many segmentation algorithms is that it is hard to accurately detect at the same time large continuous regions and their boundary location. In this paper, a Bayesian framework is used to determine through a region growing process large continuous regions. Following this process, an exact description of the boundary of each region is computed from the mutual intersection of the extracted parametric polynomials followed by a closure and approximation of this new boundary using a gradient vector flow algorithm. This algorithm is capable of segmenting not only polyhedral objects but also sculptured surfaces by creating a network of closed trimmed Bezier surfaces that are compatible with most CAD systems. Experimental results show that significant improvement of region boundary localization and closure can be achieved. In this paper, a systematic comparison of our algorithm to the most well known algorithms in the literature is presented to highlight its performance.
Psychophysical assessment of magno- and parvocellular function in schizophrenia

Recently developed psychophysical techniques permit the biasing of the processing of the stimulus by early visual channels so that responses reflect characteristics of either magno- or parvocellular pathways (Pokorny & Smith, 1997). We used such techniques to test psychophysically whether the global magnocellular dysfunction reported in schizophrenia also affects early processes. Seven schizophrenic patients and 19 normal controls participated. The task was a four-alternative forced-choice luminance discrimination, using a 2 × 2 configuration of four 1-deg squares. Target luminance threshold was determined in three conditions: the stimulus, including the target, was pulsed for 17 ms (pulse paradigm); the target was presented on a steady background of four squares (steady paradigm), or the target was presented alone (no background paradigm). We replicated previous results demonstrating magnocellular and parvocellular signatures in control participants. No evidence for an early magnocellular deficit could be detected as the thresholds of all schizophrenic observers were higher both in the steady paradigm (presumed magnocellular mediation) and in the pulse paradigm (presumed parvocellular mediation). Magnocellular dysfunction, if present in schizophrenia, must concern more integrated processes, possibly at levels at which parvocellular and magnocellular paths interact.
Characterization and Robust Classification of EEG Signal from Image RSVP Events with Independent Time-Frequency Features

This paper considers the problem of automatic characterization and detection of target images in a rapid serial visual presentation (RSVP) task based on EEG data. A novel method that aims to identify single-trial event-related potentials (ERPs) in time-frequency is proposed, and a robust classifier with feature clustering is developed to better utilize the correlated ERP features. The method is applied to EEG recordings of a RSVP experiment with multiple sessions and subjects. The results show that the target image events are mainly characterized by 3 distinct patterns in the time-frequency domain, i.e., a theta band (4.3 Hz) power boosting 300–700 ms after the target image onset, an alpha band (12 Hz) power boosting 500–1000 ms after the stimulus onset, and a delta band (2 Hz) power boosting after 500 ms. The most discriminant time-frequency features are power boosting and are relatively consistent among multiple sessions and subjects. Since the original discriminant time-frequency features are highly correlated, we constructed the uncorrelated features using hierarchical clustering for better classification of target and non-target images. With feature clustering, performance (area under ROC) improved from 0.85 to 0.89 on within-session tests, and from 0.76 to 0.84 on cross-subject tests. The constructed uncorrelated features were more robust than the original discriminant features and corresponded to a number of local regions on the time-frequency plane. Availability: The data and code are available at: http://compgenomics.cbi. utsa.edu/rsvp/index.html
Time-Dependent Film Formation from ZnDTPs and Nonphosphorus Antiwear Agents

Electrical contact resistance (ECR) studies, X-ray photoelectron spectroscopy (XPS), Auger electron spectroscopy (AES), and X-ray absorption near-edge structure spectroscopy (XANES) were carried out on specimens run with oils containing 0.05% phosphorus as either primary zinc dialkyldithio-phosphate (ZnDTP) or secondary ZnDTP in Group II base oil. A series of progressively longer ECR experiments were run on each ZnDTP. At the end of each run in the series, the ball was removed and preserved for surface analysis. The surface analyses were designed to observe chemical species deposited on the surface and within the deposited films. The observation of surface phenomena at different intervening times during the ECR experiment, allowing for characterization of the maturing antiwear film, was the distinct feature of these experiments. In general, short ECR experiments gave poorer films than long ECR experiments. Atomic concentrations versus depth were determined from AES. Quite strikingly, the antiwear films formed after only 10 min of the ECR experiment showed that both primary and secondary ZnDTPs form a thin film (∼70 Å) very rapidly. Those films are rich in Zn, P, and S. Auger and XANES analyses of the same specimens were not as revealing, most likely due to the small wear scar on the balls and the unfortunately relatively large beam cross section. ECR, XPS, and AES were then performed on oils containing nonphosphorus antiwear agents in American Petroleum Institute Group II base oil. Several nonphosphorus supplemental antiwear inhibitors were evaluated. These experiments showed separation in apparent performance among the various components.
Modeling dynamic cerebral blood volume changes during brain activation on the basis of the blood‐nulled functional MRI signal

Recently, vascular space occupancy (VASO) based functional magnetic resonance imaging (fMRI) was proposed to detect dynamic cerebral blood volume (CBV) changes using the blood‐nulled non‐selective inversion recovery (NSIR) sequence. However, directly mapping the dynamic CBV change by the NSIR signal change is based on the assumption of slow water exchange (SWE) around the capillary regime without cerebral blood flow (CBF) effects. In the present study, a fast water exchange (FWE) model incorporating with flow effects was derived from the Bloch equations and implemented for the quantification of dynamic CBV changes using VASO‐fMRI during brain activation. Simulated results showed that only subtle differences in CBV changes estimated by these two models were observed on the basis of previously published VASO results. The influence of related physiological and biophysical factors within typical ranges was evaluated in steady‐state simulations. It was revealed that in the transient state the CBV curves could be delayed in comparison with measured NSIR curves owing to the imbalance between the inflowing and outflowing blood signals. Copyright © 2007 John Wiley & Sons, Ltd.
Human epidermal growth factor receptor 2 (HER2) in salivary gland carcinomas

Background: HER2 is a target for antibody-based treatment of breast and gastric carcinoma which is highly successful in advanced disease as well as in the adjuvant setting. To determine the potential applicability of such therapies, salivary gland tumours were analysed for HER2 overexpression/amplification in this study. Methods: A tissue microarray (TMA) was constructed from 994 carcinomas and 205 adenomas of the salivary gland. Slides were analysed for HER2 overexpression and gene amplification using FDA approved reagents for immunohistochemistry (IHC; Hercep-Test; Dako) and fluorescence in situ hybridisation (FISH; PathVysion; Vysis-Abbott). Results: HER2 was found overexpressed in 39 of 915 (4.26%) and amplified in nine of 915 interpretable salivary gland carcinomas (0.98%). HER2 overexpression was mostly found in salivary duct carcinoma. All other entities were mainly HER2 negative. HER2 was overexpressed in 34 of 319 (10.65%) mucoepidermoid carcinomas, one of 170 (0.59%) acinic cell adenocarcinomas and three of 14 (21.43%) salivary duct carcinomas. HER2 amplification was seen in three of 294 (1.01%) mucoepidermoid carcinomas, three of 14 (21.43%) salivary duct carcinomas, one of 81 (1.23%) adenocarcinomas (NOS), one of 12 (8.33%) cystadenocarcinomas and one of 19 (2.08%) myoepithelial carcinomas. HER2 amplification was found in seven of 39 immunohistochemically HER2 positive (2+ and 3+) tumours (17.95%) but in only two of 849 (0.24%) IHC negative tumours (p < 0.0001). No amplification/overexpression was found in adenoid cystic carcinoma, epithelial-myoepithelial carcinoma, polymorphous low grade carcinoma, basal cell carcinoma, myoepithelial carcinoma, cystadenocarcinoma and oncocytic carcinoma. Conclusion: HER2 overexpression caused by gene amplification was observed in about 20% of patients with salivary duct cancers but was rare in salivary adenomas and other carcinomas. Therefore, anti-HER2 therapy may represent a therapeutic option only in a small subgroup of salivary gland tumours.
Combining hierarchical and goal-directed speed-up techniques for dijkstra's algorithm

In recent years, highly effective hierarchical and goal-directed speed-up techniques for routing in large road networks have been developed. This article makes a systematic study of combinations of such techniques. These combinations turn out to give the best results in many scenarios, including graphs for unit disk graphs, grid networks, and time-expanded timetables. Besides these quantitative results, we obtain general insights for successful combinations.
Anthocyanin and Carotenoid Contents in Different Cultivars of Chrysanthemum (Dendranthema grandiflorum Ramat.) Flower

The flowers of twenty-three cultivars of Dendranthema grandiflorum Ramat. were investigated to determine anthocyanin and carotenoid levels and to confirm the effects of the pigments on the flower colors using high-performance liquid chromatography (HPLC) and electrospray ionization-mass spectrometry (ESI-MS). The cultivars contained the anthocyanins cyanidin 3-glucoside (C3g) and cyanidin 3-(3ʺ-malonoyl) glucoside (C3mg) and the following carotenoids: lutein, zeaxanthin, β-cryptoxanthin, 13-cis-β-carotene, α-carotene, trans-β-carotene, and 9-cis-β-carotene. The cultivar “Magic” showed the greatest accumulation of total and individual anthocyanins, including C3g and C3gm. On the other hand, the highest level of lutein and zeaxanthin was noted in the cultivar “Il Weol”. The cultivar “Anastasia” contained the highest amount of carotenoids such as trans-β-carotene, 9-cis-β-carotene, and 13-cis-β-carotene. The highest accumulation of β-cryptoxanthin and α-carotene was noted in the cultivar “Anastasia” and “Il Weol”. Our results suggested that ‘Magic”, “Angel” and “Relance’ had high amounts of anthocyanins and showed a wide range of red and purple colors in their petals, whereas “Il Weol’, “Popcorn Ball’ and “Anastasia” produced higher carotenoid contents and displayed yellow or green petal colors. Interestingly, “Green Pang Pang”, which contained a high level of anthocyanins and a medium level of carotenoids, showed the deep green colored petals. “Kastelli”, had high level of carotenoids as well as a medium level of anthocyanins and showed orange and red colored petals. It was concluded that each pigment is responsible for the petal’s colors and the compositions of the pigments affect their flower colors and that the cultivars could be a good source for pharmaceutical, floriculture, and pigment industries.
Interactive object learning for robot companions using mosaic images

Natural human-robot interaction (HRI) is a key feature of mobile robot companions collaborating with humans. To achieve natural HRI, multiple communication modalities like vision, speech, and gestures have to be utilized. Besides, capabilities to emulate cognitive processes, e.g., object learning and object recognition, are essential. In this work we present a new approach to interactive object learning enabling multi-view object representation. To overcome a robot's limitation of having only one view point, we make use of an iconic memory consisting of previously acquired images. As the relevant scene area is unknown during construction of the iconic memory, a representation in the form of mosaic images is applied. The relevant image patches describing an object referenced by the user are selected through an object attention mechanism. The resulting multi-view object representations improve the flexibility of our interactive approach for object learning.
Allopregnanolone Reinstates Tyrosine Hydroxylase Immunoreactive Neurons and Motor Performance in an MPTP-Lesioned Mouse Model of Parkinson's Disease

Restorative/protective therapies to restore dopamine neurons in the substantia nigra pars compacta (SNpc) are greatly needed to effectively change the debilitating course of Parkinson's disease. In this study, we tested the therapeutic potential of a neurogenic neurosteroid, allopregnanolone, in the restoration of the components of the nigrostriatal pathway in MPTP-lesioned mice by measuring striatal dopamine levels, total and tyrosine hydroxylase immunoreactive neuron numbers and BrdU-positive cells in the SNpc. An acute treatment (once/week for two weeks) with allopregnanolone restored the number of tyrosine hydroxylase-positive and total cell numbers in the SNpc of MPTP-lesioned mice, even though this did not increase striatal dopamine. It was also noted that MPTP treated mice to which allopregnanolone was administered had an increase in BrdU-positive cells in the SNpc. The effects of allopregnanolone in MPTP-lesioned mice were more apparent in mice that underwent behavioral tests. Interestingly, mice treated with allopregnanolone after MPTP lesion were able to perform at levels similar to that of non-lesioned control mice in a rotarod test. These data demonstrate that allopregnanolone promotes the restoration of tyrosine hydroxylase immunoreactive neurons and total cells in the nigrostriatal tract, improves the motor performance in MPTP-treated mice, and may serve as a therapeutic strategy for Parkinson's disease.
Cotton Reinforced Biopolymer Matrix Composite: Effect of Curing and Aging Conditions on its Mechanical Properties

The attention in natural fiber reinforced biopolymer composite materials has been rapidly growing both in terms of industrial applications and basic research. This study investigated on the effect of aging time on mechanical properties and morphological structure of thermoset protein-based composites from egg albumen reinforced by natural cotton fibres. The cotton/albumen composites (CAC) were fabricated by hands lay-up technique with 10 w/w % of fiber content. The samples were cured and aged at room temperature for different aging time from 7 to 32 days. The cotton fibres have contributed in a significant improvement in mechanical strength and toughness of the composites. Tensile strength of the composites achieved the optimum strength of 9 MPa after 21 days of aging time and constant till 32 days. As the aging time increased, impact strength of the composites also improved to some value of 20 kJ/m2. Thereby after 21 days observation, the composites show an equilibrium moisture content of 6-9 wt%, and the strength remains stable at room condition with 50-60% relative humidity (RH). Morphology studied using SEM justify that the moisture content after aging time influenced mechanical properties of the composites.
Viscoelastic properties of the intervertebral disc and the effect of nucleus pulposus removal

The viscoelastic properties of 12 ovine lumbar discs attached to the adjacent vertebrae were investigated using dynamic mechanical analysis. Each specimen was subjected to a sinusoidally varying compressive force of between 36 and 44 N at frequencies in the range 0.1–10 Hz. Storage stiffness, loss stiffness, and phase angle were calculated. The nucleus pulposus was then removed and the dynamic mechanical analysis was repeated for the denucleated specimen. During the testing the intact and denucleated discs were viscoelastic. Storage stiffness for the intact and denucleated discs increased linearly with log frequency. After removal of the nucleus pulposus the storage stiffness can increase or decrease. The experimental procedure may be useful for investigating whether nucleus replacement implants can restore the viscoelastic properties of an intact disc.
The Health Behavior Checklist: Factor structure in community samples and validity of a revised good health practices scale

This study examined the factor structure and predictive validity of the commonly used multidimensional Health Behavior Checklist. A three-factor structure was found in two community samples that included men and women. The new 16-item Good Health Practices scale and the original Wellness Maintenance scale were the only Health Behavior Checklist scales to be related to cardiovascular and metabolic risk factors. While the other Health Behavior Checklist scales require further validation, the Good Health Practices scale could be used where more objective or longer measures are not feasible.
Specificity in signal transduction among glycosylphosphatidylinositols of Plasmodium falciparum, Trypanosoma brucei, Trypanosoma cruzi and Leishmania spp.

Glycosylphosphatidylinositols (GPIs) and related glycoconjugates of parasite origin have been shown to regulate both the innate and acquired immune systems of the host. This is achieved through the activation of novel GPI‐dependent signalling pathways in macrophages, lymphocytes and other cell types. Parasite GPIs impart at least two distinct signals to host cells through the structurally distinct inositolphosphoglycan (IPG) and fatty acid domains. Binding of IPG to as yet uncharacterized cell surface receptor(s) leads to activation of src‐family protein tyrosine kinases: depending upon structure, GPI‐derived fatty acids can either activate or antagonize protein kinase C, and may enter the sphingo‐myelinase pathway. The degree of fatty acid saturation may also contribute to signalling activity. Thus, variation in structure of parasite GPIs imparts different properties of signal transduction upon this class of glycolipid. The divergent activities of GPIs from various protozoal taxa reflect global aspects of the host/parasite relationship, suggesting that GPI signalling is a central determinant of disease in malaria, leishmaniasis and both American and African trypanosomiases.
rSNPBase: a database for curated regulatory SNPs

In recent years, human regulatory SNPs (rSNPs) have been widely studied. Here, we present database rSNPBase, freely available at http://rsnp.psych.ac.cn/, to provide curated rSNPs that analyses the regulatory features of all SNPs in the human genome with reference to experimentally supported regulatory elements. In contrast with previous SNP functional annotation databases, rSNPBase is characterized by several unique features. (i) To improve reliability, all SNPs in rSNPBase are annotated with reference to experimentally supported regulatory elements. (ii) rSNPBase focuses on rSNPs involved in a wide range of regulation types, including proximal and distal transcriptional regulation and post-transcriptional regulation, and identifies their potentially regulated genes. (iii) Linkage disequilibrium (LD) correlations between SNPs were analysed so that the regulatory feature is annotated to SNP-set rather than a single SNP. (iv) rSNPBase provides the spatio-temporal labels and experimental eQTL labels for SNPs. In summary, rSNPBase provides more reliable, comprehensive and user-friendly regulatory annotations on rSNPs and will assist researchers in selecting candidate SNPs for further genetic studies and in exploring causal SNPs for in-depth molecular mechanisms of complex phenotypes.
Imatinib targets PDGF signaling in melanoma and host smooth muscle neighboring cells

In previous in vitro studies, we showed that imatinib abrogated platelet‐derived growth factor receptor α (PDGFRα) signaling, disrupting both breast cancer and smooth muscle cells (SMC). PDGF is also a powerful mitogen for neural crest origin cells like melanocytes. The purpose of the present study was to evaluate the effect of imatinib on melanoma growth and in angiogenesis, with emphasis to the involvement in PDGF signaling. B16 melanoma cells incubation with 5 µM (IC50) imatinib resulted in a significant reduction in cell proliferation and migration. Apoptosis, however, was not significantly affected. Phosphorylated‐PDGFRα expression was decreased in B16 lysates. In a mouse model of B16 melanoma, intraperitoneal administration of imatinib at early day light significantly decreased tumor growth. These findings were corroborated by a highly significant reduction in cell proliferation and increase in apoptosis in melanoma tumors. This was accompanied by a decrease in microvessel density and in the number of SMC‐presenting vessels. Imatinib further inhibited PDGFRα expression and activity, as confirmed by the down‐regulation of downstream Erk signaling pathway. Altogether, this study demonstrates that besides targeting tumor cells, imatinib also prevents vascular integrity. The current study provides evidence that the paracrine crosstalk between tumor cells and host neighboring cells is crucial for the elucidation of imatinib effects. In addition, the fact that this molecule targets vascular support cells further enlarges its therapeutic purpose to a wide range of vasculoproliferative pathologies. J. Cell. Biochem. 111: 433–441, 2010. © 2010 Wiley‐Liss, Inc.