Miracle-dz/UniFAR-FTUs huggingface dataset:
The subspace coding method: a new indexing scheme for high-dimensional data

This paper presents a new indexing scheme, the Subspace Coding Method (SCM), that offers high performance similarity retrieval. It is based on an analysis of the two superior access methods proposed so far: the SR-tree and the VAFile. Our experimental test by real data provides that the SR-tree offers better performance. However, as dimensionality increases, the large volume of entries in non-leaf nodes degrades the search performance. Based on the analysis, we introduce the SCM, a new indexing scheme applicable to any tree index employing MBR (Minimum Bounding Rectangle) and/or MBS (Minimum Bounding Sphere). The basic idea of the SCM is the introduction of Virtual Bounding Rectangle (VBR) and Virtual Bounding quasiSphere (VBS), which contain and approximate MBR and MBS, respectively. Unlike the approximation of absolute vector positions used in the VA-File, VBRs and VBSs are relative to the parent’s VBR. The experimental results demonstrate the effectiveness of the SCM.
Reliable and Real-Time Communication in Industrial Wireless Mesh Networks

Industrial wireless mesh networks are deployed in harsh and noisy environments for process measurement and control applications. Compared with wireless community networks, they have more stringent requirements on communication reliability and real-time performance. Missing or delaying of the process data by the network may severely degrade the overall control performance. In this paper, we abstract the primary reliability requirements in typical industrial wireless mesh networks and define three types of reliable routing graphs for different communication purposes. We present efficient algorithms to construct them and describe the recovery mechanisms in the event of component failures. Based on these graphs, data link layer communication schedules are generated to achieve end-to-end real-time performance. We demonstrate through extensive experimental results that our algorithms can achieve highly reliable routing, improved communication latency and stable real-time communication in large-scale networks at the cost of modest overhead in device configuration.
EHPnet: Doctors and the Environment

We present a web-based server, called ESTpass, for processing and annotating sequence data from expressed sequence tag (EST) projects. ESTpass accepts a FASTA-formatted EST file and its quality file as inputs, and it then executes a back-end EST analysis pipeline consisting of three consecutive steps. The first is cleansing the input EST sequences. The second is clustering and assembling the cleansed EST sequences using d2_cluster and CAP3 programs and producing putative transcripts. From the CAP3 output, ESTpass detects chimeric EST sequences which are confirmed through comparison with the nr database. The last step is annotating the putative transcript sequences using RefSeq, InterPro, GO and KEGG gene databases according to user-specified options. The major advantages of ESTpass are the integration of cleansing and annotating processes, rigorous chimeric EST detection, exhaustive annotation, and email reporting to inform the user about the progress and to send the analysis results. The ESTpass results include three reports (summary, cleansing and annotation) and download function, as well as graphic statistics. They can be retrieved and downloaded using a standard web browser. The server is available at http://estpass.
Location-Based Millimeter Wave Multi-Level Beamforming Using Compressive Sensing

In this letter, a novel millimeter wave (mmWave) multi-level beamforming (BF) is proposed. User positioning is used for roughly defining the area within which the mobile station (MS) is properly located. Based on this, a multi-level beam search is conducted using compressive sensing-based channel estimation to find out the transmit/receive beams for establishing the mmWave link. The estimated MS location-uncertainty area is used to determine the number of beams along with the beamwidth required for constructing the sensing matrix used in each beam searching level. Mathematical and simulation analysis confirm the superiority of the proposed BF scheme over the conventional ones in both BF complexity and performance.
Heterozygous reeler mice exhibit alterations in sensorimotor gating but not presynaptic proteins

Post mortem, reduced brain reelin is noted in schizophrenia. Accordingly, the reelin‐haploinsufficient heterozygous reeler mouse (HRM) has been posited as a murine model of the illness. One study reported that HRM exhibit deficits in prepulse inhibition (PPI) of the acoustic startle reflex, a sensorimotor‐gating behavior that is disrupted in schizophrenia, although this finding has not been reproduced. To extend the characterization of putative sensorimotor‐gating deficits in HRM, these mice were subjected to a sophisticated series of PPI tests. Mice were tested in a cross‐modal PPI protocol that combined an acoustic prepulse with a tactile startle stimulus and also in a protocol that included varying prepulse–pulse intervals and varying acoustic startle pulse intensities. Levels of acoustic startle habituation and cross‐modal PPI were significantly lower in HRM, although unimodal PPI did not differ. The HRM also exhibited increased PPI compared to wildtypes at short interstimulus intervals between prepulse and pulse stimuli when the interval between the acoustic prepulse and pulse were varied, and were more reactive to higher intensity startle stimuli. Some of these deficits in sensorimotor gating parallel those of schizophrenia, a disease characterized by alterations in synaptic protein expression. Therefore, levels of presynaptic proteins were measured in multiple brain regions using ELISA in HRM. No significant alterations in presynaptic protein expression were found. Thus, HRM exhibit a complex pattern of changes in startle reactivity and sensorimotor gating, with both similarities to and differences from schizophrenia. However, it is unlikely that these behavioral differences may be accounted for by altered regional levels of presynaptic proteins.
Modulation of CYP1A1 by PKC Inhibitors and TPA Pre-Treatments in MH1C1 Rat Hepatoma Cells Exposed to 3 -Methylcholanthrene

Cytochrome P4501A1 (CYP1A1), an enzyme known to metabolize polycyclic aromatic hydrocarbons, is regulated by the aryl hydrocarbon receptor (AhR). The involvement of protein kinase C (PKC) in the regulation of AhR signal transduction pathway, has been widely studied but the role of specific PKC isoform(s) involved in this process it is not well clarified. To study which PKC isoform(s) is implicated in the regulation of CYP1A1, in the poorly tumorigenic MH1C1 rat hepatoma cells, we examined the effects of some PKC pharmacological inhibitors, Calphostin C (CAL), Staurosporine (STA) and H7, and of 12-0-tetradecanoyl phorbol 13-acetate (TPA), a PKC activator, on basal and 3- methylcholanthrene (MC)-induced CYP1A1 protein expression and mediated ethoxyresorufin O-deethylation (EROD) activity. In parallel, the activities of PKC-α, -βI, -δ and -e isoforms, the most expressed in MH1C1 cells, were monitored. After pre-treatment with CAL, STA and H7, the MC-induced CYP1A1 protein and EROD activity were rapidly reduced with temporal profile similar to the profile of the activity of α and β1 PKC isoforms. Moreover, TPA pre-treatment induced a biphasic effect on EROD activity, and a decline of PKC -βI and -α, in first instance, and -δ and -e activities later on. These findings clearly show that, in MH1C1 cells, PKC is involved in CYP1A1 regulation and that α and βI classic PKC isoforms play an active role in modulating this process.
T-cell-mediated cytotoxicity against autologous malignant melanoma: analysis with interleukin 2-dependent T-cell cultures.

The cytotoxic reactivity of lymphocytes for autologous melanoma cells was studied in a group of 13 melanoma patients. No cytotoxicity was observed with lymphocytes freshly isolated from peripheral blood or with lymphocytes cocultured for 7 days with autologous melanoma cells. Growth of lymphocytes previously sensitized with autologous melanoma in vitro in interleukin 2 (IL-2)-containing medium, however, resulted in cytotoxic reactivity for autologous melanoma in 7/13 patients. The reactivity of IL-2-dependent lymphocytes for autologous melanoma was particularly striking in one patient (A.V.) who has had an unexpectedly favorable clinical course and, because of their consistently high reactivity, AV lymphocytes were selected for detailed specificity analysis. After 2-3 weeks in culture in IL-2-containing medium, AV lymphocytes were cytolytic for autologous melanoma cells but not autologous Epstein-Barr virus-transformed B cells, autologous fibroblasts, or allogeneic tumor targets. Specificity of autologous melanoma reactivity was confirmed by competitive inhibition assays. The IL-2-dependent AV lymphocytes formed rosettes with sheep erythrocytes and expressed OKT 3 and Ia antigens. After longer periods of culture, AV lymphocytes were found to react with a wider range of target cells, and repeated attempts to isolate cultures with restricted reactivity to autologous melanoma by resensitization with autologous melanoma and limiting-dilution techniques were unsuccessful. The restricted reactivity of early cultures could be preserved, however, in frozen storage, but shifted again toward broader reactivity after several weeks in culture. The recognition of cytotoxic T cells with initial restricted reactivity for autologous melanoma suggests reinvestigation of the question of specific cellular immunity to human cancer.
Diagnostic test pattern generation for sequential circuits

A method to perform diagnostic test generation in sequential circuits by modifying a conventional test generator is presented. The method utilizes circuit netlist modification along with a forced value at primary input in the modified circuit techniques to reduce the computational effort for diagnostic test pattern generation in sequential circuits. Speed-up of the diagnostic ATPG process is achieved by the identification of states that are impossible to justify with three-valued logic.
Nucleotide-Induced Restoration of Conjunctival Chloride and Fluid Secretion in Adenovirus Type 5-Infected Pigmented Rabbit Eyes

We evaluated the role of extracellular UTP and other nucleotides in the regulation of chloride (JCl) and fluid secretion (JCl) across the pigmented rabbit conjunctiva. Jv was determined in freshly excised conjunctival tissues mounted between two buffer reservoirs maintained in an enclosed environment at 37°C. Short circuit current (Isc) and 36Cl flux were measured using modified Ussing-type chambers. Fluid flux measurements were made with a pair of capacitance probes. After observing the baseline for 15 to 30 min, fluid flux was measured in the presence of mucosally applied nucleotides (10 μM) for a period of 30 min. Mucosal application of 10 μM each of UTP, UDP, ATP, ADP, AMP, adenosine, and ATP-γ-S transiently stimulated fluid secretion across the conjunctiva to a significant extent for 10 to 15 min. Other nucleotides did not show any significant effect. The stimulation of fluid secretion correlated well with the stimulation in Isc (r2 = 0.85). UTP (0.1–1000 μM) led to a maximal increase in fluid secretion by 11.72 ± 0.48 μl/(h · cm2) with an EC50 value of 10.39 ± 1.08 μM. ATP (0.1–1000 μM) caused a maximal increase in fluid secretion by 11.89 ± 0.88 μl/(h · cm2) with an EC50 value of 17.23 ± 2.63 μM. Adenovirus type 5 (Ad5) infection significantly decreased both net 36Cl secretion across the conjunctiva by ∼56% and the rate of fluid secretion by ∼56%. UTP (10 μM), but not 1 mM 8-bromo-cAMP, was able to elicit a normal stimulatory response in the Ad5-infected tissues. In conclusion, mucosal application of purinergic nucleotides may be therapeutically important in restoring ion and fluid secretion in the diseased conjunctiva.
Transforming Growth Factor β/activin signalling induces epithelial cell flattening during Drosophila oogenesis

ABSTRACT Although the regulation of epithelial morphogenesis is essential for the formation of tissues and organs in multicellular organisms, little is known about how signalling pathways control cell shape changes in space and time. In the Drosophila ovarian epithelium, the transition from a cuboidal to a squamous shape is accompanied by a wave of cell flattening and by the ordered remodelling of E-cadherin-based adherens junctions. We show that activation of the TGF&bgr; pathway is crucial to determine the timing, the degree and the dynamic of cell flattening. Within these cells, TGF&bgr; signalling controls cell-autonomously the formation of Actin filament and the localisation of activated Myosin II, indicating that internal forces are generated and used to remodel AJ and to promote cytoskeleton rearrangement. Our results also reveal that TGF&bgr; signalling controls Notch activity and that its functions are partly executed through Notch. Thus, we demonstrate that the cells that undergo the cuboidal-to-squamous transition produce active cell-shaping mechanisms, rather than passively flattening in response to a global force generated by the growth of the underlying cells. Thus, our work on TGF&bgr; signalling provides new insights into the mechanisms through which signal transduction cascades orchestrate cell shape changes to generate proper organ structure.
Efficient and effective metasearch for text databases incorporating linkages among documents

Linkages among documents have a significant impact on the importance of documents, as it can be argued that important documents are pointed to by many documents or by other important documents. Metasearch engines can be used to facilitate ordinary users for retrieving information from multiple local sources (text databases). There is a search engine associated with each database. In a large-scale metasearch engine, the contents of each local database is represented by a representative. Each user query is evaluated against he set of representatives of all databases in order to determine the appropriate databases (search engines) to search (invoke) In previous word, the linkage information between documents has not been utilized in determining the appropriate databases to search. In this paper, such information is employed to determine the degree of relevance of a document with respect to a given query. Specifically, the importance (rank) of each document as determined by the linkages is integrated in each database representative to facilitate the selection of databases for each given query. We establish a necessary and sufficient condition to rank databases optimally, while incorporating the linkage information. A method is provided to estimate the desired quantities stated in the necessary and sufficient condition. The estimation method runs in time linearly proportional to the number of query terms. Experimental results are provided to demonstrate the high retrieval effectiveness of the method.
Zebrafish TRPA1 Channels Are Required for Chemosensation But Not for Thermosensation or Mechanosensory Hair Cell Function

Transient receptor potential (TRP) ion channels have been implicated in detecting chemical, thermal, and mechanical stimuli in organisms ranging from mammals to Caenorhabditis elegans. It is well established that TRPA1 detects and mediates behavioral responses to chemical irritants. However, the role of TRPA1 in detecting thermal and mechanical stimuli is controversial. To further clarify the functions of TRPA1 channels in vertebrates, we analyzed their roles in zebrafish. The two zebrafish TRPA1 paralogs are expressed in sensory neurons and are activated by several chemical irritants in vitro. High-throughput behavioral analyses of trpa1a and trpa1b mutant larvae indicate that TRPA1b is necessary for behavioral responses to these chemical irritants. However, TRPA1 paralogs are not required for behavioral responses to temperature changes or for mechanosensory hair cell function in the inner ear or lateral line. These results support a role for zebrafish TRPA1 in chemical but not thermal or mechanical sensing, and establish a high-throughput system to identify genes and small molecules that modulate chemosensation, thermosensation, and mechanosensation.
Input-output linearization and stabilization analysis of internal dynamics of three-phase AC/DC voltage-source converters

Based on the input-output linearization method of differential geometry theory, the internal dynamics i.e. remaining dynamics of the nonlinear three-phase AC/DC voltage-source converter system, with output represented by (id, uc) i.e. direct voltage control and (id, iq) i.e. indirect voltage control respectively, are been studied. It is pointed out that the three-phase AC/DC voltage-source converter is actually a nonminimum phase system, and its internal dynamics is unstable when using direct voltage control. But, if the output is represented by (id, iq) i.e. indirect voltage control, the system is a minimum phase system, and its internal dynamics is asymptotically stable. It is reasonable to control the dc voltage indirect through the regulation of (id, iq). If do not add a voltage control loop, the setting time of the output dc voltage is mainly depend on the parameters of the system and too long. So, a simple voltage control method is proposed through ascertain iAret to maintain the stabilization of uc. Thus, a cascade control system is proposed. The inner current loop can maintain the sinusoidal waveform and unity power factor. The outer voltage loop can maintain the DC-bus voltage to the output voltage reference and provides the reference of inner current loop id. The control signals are modulated by SVPWM technology. The controlled three-phase AC/DC voltage-source converter has the features of global stability, fast tracking of DC-bus voltage command with zero steady-state error and do not need adding PI controller, asymptotic rejection of load disturbance, robustness against parameter (L, C) variation and decoupled dynamical responses between d and q current loops.
Improving pattern discovery relevancy by deriving constraints from expert models

To support knowledge discovery from data, many pattern mining techniques have been proposed. One of the bottlenecks for their dissemination is the number of computed patterns that appear to be either trivial or uninteresting with respect to available knowledge. Integration of domain knowledge in constraint-based data mining is limited. Relevant patterns still miss because methods partly fail in assessing their subjective interestingness. However, in practice, we often have in the literature mathematical models defined by experts based on their domain knowledge. We propose here to exploit such models to derive constraints that can be used during the data mining phase to improve both pattern relevancy and computational efficiency. Even though the approach is generic, it is illustrated on pattern set discovery from real data for studying soil erosion.
Is There Diagnostic Value in Detection of Immunoglobulin G Antibodies to the Epstein–Barr Virus Early Antigen?

Abstract The Epstein–Barr virus early antigen (EBV EA) complex consists of multiple proteins with potential significance for diagnosis of EBV-related diseases. In many individuals, detection of antibody to the early antigen (EA) is a sign of active infection, but 20% of healthy people may have this antibody for years. We studied the role of EA immunoglobulin G (IgG) in individuals with atypical antibody responses in the diagnosis of infectious mononucleosis (IM) and in EBV-infected transplant patients. EA IgG was present in 72% of confirmed IM patients. A trend was observed between high viral loads and the presence of EA IgG and between low viral loads and the absence of EA IgG in EBV-associated disease negative liver transplant recipients. Three assays that measure serum EA IgG were compared; enzyme-linked immunosorbent assay (ELISA), chemiluminescent immunoassay (CLIA), and immunoblot assay. The automated CLIA was found to be more accurate than the ELISA when using the immunoblot assay as a “gold standard” assay in the detection of EA IgG. There may be a potential role for EA IgG testing, together with EBV viral load, in the prediction of transplant recipients at risk of EBV-associated disease; however, EA IgG does not play a significant role in the differential diagnosis of EBV infection in immunocompetent individuals.
Grouping-Enhanced Resilient Probabilistic En-Route Filtering of Injected False Data in WSNs

In wireless sensor networks, the adversary may inject false reports to exhaust network energy or trigger false alarms with compromised sensor nodes. In response to the problems of existing schemes on the security resiliency, applicability and filtering effectiveness, this paper proposes a scheme, referred to as Grouping-enhanced Resilient Probabilistic En-route Filtering (GRPEF). In GRPEF, an efficient distributed algorithm is proposed to group nodes without incurring extra groups, and a multiaxis division based approach for deriving location-aware keys is used to overcome the threshold problem and remove the dependence on the sink immobility and routing protocols. Compared to the existing schemes, GRPEF significantly improves the effectiveness of the en-route filtering and can be applied to the sensor networks with mobile sinks while reserving the resiliency.
In silico insight into EGFR treatment in patients with lung carcinoma and T790M mutations

The T790M mutational basis of treatment failure, following treatment via alteration of the epidermal growth factor receptor (EGFR) pathway, is a well-known anomaly in patients with non-small cell lung cancer (NSCLC). The T790M mutation activates the kinase domain, causing tyrosine kinase inhibitors, such as gefitinib, to elicit little or no response. To overcome this acquired resistance in NSCLC cells, the present study utilized a structure-based drug designing method to identify a novel lead compound. An in-house traditional Chinese medicinal compound database was used and following initial virtual screening, pre-absorption, distribution, metabolism and excretion/Tox and automated docking analyses, nardosinon was selected as the most appropriate candidate for further analysis. Two NSCLC cell lines, PC9GR4 and H2347, were used to test nardosinon and the results were compared with gefitinib. Results from an initial cell death assay revealed that nardosinon was able to induce cell death in NSCLC cells with and without the T790M mutation. These findings suggest that nardosinon may be an effective pharmacological compound for NSCLC treatment, including T790M EGFR mutant NSCLC cells.
Foreign-accented speaker-independent speech recognition

This research investigated whether acoustic-phonetic knowledge of the mother tongue of a non-native speaker can be used to adapt an existing target language phoneme HMM recognizer. For this purpose three sets of phoneme HMMs were generated, one representing the target language (German), one the mother tongue of the non-native speaker (Turkish), and the third the foreign-accented pronunciation of the target language (German spoken by Turkish speakers). The latter served as a benchmark for the tested adaptation methods. A derived Hidden Markov Model (HMM) clustering algorithm was applied on the target language phoneme HMM set using the mother tongue phoneme HMM set of the non-native speaker. Following the HMM adaptation a phoneme-level pronunciation technique was applied to generate phoneme mapping rules for the lexicon adaptation task. The results revealed a relative reduction of about 6% in WER for the adapted HMM. No further improvements were observed from the lexicon adaptation task.