Miracle-dz/UniFAR-FTUs huggingface dataset:
Diversity MPSK receivers in cochannel interference

The performance of M-ary phase shift keying (MPSK) in the presence of cochannel interference in microcellular radio environments is analyzed. Average bit error rates (BER) of MPSK using both dual-branch equal gain combining (EGG) and dual-branch selection combining (SC) are derived assuming that the desired signal experiences frequency-nonselective Ricean or Nakagami fading and the multiple interferers experience independent frequency-nonselective Rayleigh fading. Nyquist pulses are used, and perfect coherent detection is assumed at the receiver. The accuracy of the Gaussian interference approximation for diversity receivers is also assessed.
Floating-point computation using a microcontroller

A description is given of the increasing numeric processing requirements encountered during instrumentation development with the Intel 8051 microcontroller and of an assembly-language floating-point package obtained and used. For the authors' application, where there was plenty of time to perform calculations and program memory to store the software required to perform the calculations, incorporation of assembly-language floating-point routines (compatible with ANSI/IEEE Std 754-1985) was an effective method. <<ETX>>
Research of second harmonic generation images based on texture analysis

Texture analysis plays a crucial role in identifying objects or regions of interest in an image. It has been applied to a variety of medical image processing, ranging from the detection of disease and the segmentation of specific anatomical structures, to differentiation between healthy and pathological tissues. Second harmonic generation (SHG) microscopy as a potential noninvasive tool for imaging biological tissues has been widely used in medicine, with reduced phototoxicity and photobleaching. In this paper, we clarified the principles of texture analysis including statistical, transform, structural and model-based methods and gave examples of its applications, reviewing studies of the technique. Moreover, we tried to apply texture analysis to the SHG images for the differentiation of human skin scar tissues. Texture analysis method based on local binary pattern (LBP) and wavelet transform was used to extract texture features of SHG images from collagen in normal and abnormal scars, and then the scar SHG images were classified into normal or abnormal ones. Compared with other texture analysis methods with respect to the receiver operating characteristic analysis, LBP combined with wavelet transform was demonstrated to achieve higher accuracy. It can provide a new way for clinical diagnosis of scar types. At last, future development of texture analysis in SHG images were discussed.
Etude des modifications épigénétiques en fonction de l'agressivité du cancer sporadique du sein : l'implication de l'histone désacétylase SIRT1 dans la progression tumorale

Avec 59 000 nouveaux cas en 2017, le cancer du sein est le cancer le plus frequemment diagnostique chez les femmes francaises, et pose un reel probleme de sante publique en France, mais aussi au niveau mondial. Il est bien etabli que la complexite de la carcinogenese implique des modifications epigenetiques profondes qui contribuent au processus du developpement tumoral. La deregulation des marques d'histones acetylees H3 et H4 font partie de ces modifications. L'acetylation et la desacetylation des proteines sont des modifications posttraductionnelles majeures qui regulent l'expression des genes lies au cancer et a l'activite d'une myriade d'oncoproteines. Ainsi, une activite desacetylase aberrante peut alors favoriser ou supprimer la tumorigenese dans differents types de cancers humains, y compris le cancer du sein. La desacetylase SIRT1 et l’acetyltransferase TIP60 sont 2 enzymes epigenetiques antagonistes qui sont impliquees dans l'apoptose, la regulation des genes, la stabilite genomique, la reparation de l'ADN, et le developpement du cancer. Dans le cadre de cette these, nous avons etudie la deregulation des profils d’acetylation des histones H3 et H4 dans les differents sous-types moleculaires du cancer du sein, et investigue l’implication de SIRT1 et de TIP60 dans la progression tumorale de cancer du sein. Tout d’abord, nous avons signale les roles de SIRT1 et de TIP60 comme des biomarqueurs pronostiques potentiels en revelant leurs expressions differentielles en fonction de l’agressivite du cancer. Ensuite, nous avons montre leur regulation epigenetique differentielle des cibles histones en fonction du sous-type moleculaire, ainsi que leur modulation de la marque activatrice H3K4ac. En outre, l’inhibition de ces 2 enzymes par des Epidrogues s’est averee comme une strategie efficace dans le traitement du cancer. Ces travaux mettent en relief alors, SIRT1 et TIP60 comme des cibles therapeutiques potentielles du cancer sporadique du sein.
Error rates, PCR recombination, and sampling depth in HIV-1 Whole Genome Deep Sequencing

Deep sequencing is a powerful and cost-effective tool to characterize the genetic diversity and evolution of virus populations. While modern sequencing instruments readily cover viral genomes many thousand fold and very rare variants can in principle be detected, sequencing errors, amplification biases, and other artifacts can limit sensitivity and complicate data interpretation. Here, we describe several control experiments and error correction methods for whole-genome deep sequencing of viral genomes. We developed many of these in the course of a large scale whole genome deep sequencing study of HIV-1 populations. We measured the substitution and indel errors that arose during sequencing and PCR and quantified PCR-mediated recombination. We find that depending on the viral load in the samples, rare mutations down to 0.2% can be reproducibly detected. PCR recombination can be avoided by consistently working at low amplicon concentrations.
A competitive memetic algorithm for the distributed two-stage assembly flow-shop scheduling problem

This article addresses the distributed two-stage assembly flow-shop scheduling problem (DTSAFSP) with makespan minimisation criterion. A mixed integer linear programming model is presented, and a competitive memetic algorithm (CMA) is proposed. When designing the CMA, a simple encoding scheme is proposed to represent the factory assignment and the job processing sequence; and a ring-based neighbourhood structure is designed for competition and information sharing. Moreover, some knowledge-based local search operators are developed to enhance the exploitation ability. The influence of parameter setting on the CMA is investigated using the analysis of variance method. Extensive computational tests and comparisons are carried out, which demonstrate the effectiveness of the proposed CMA in solving the DTSAFSP.
Wardrobe Experiment Management System for Integrated Analysis of Epigenomics Data

Development of next-generation sequencing has revolutionized molecular biology by enhancing the ability to perform genome-wide studies. However, due to the need for bioinformatic expertise and the size of resulting datasets, use of these technologies is still beyond the capabilities of many laboratories. Herein, we present the Wardrobe Experiment Management System, which allows users to store, visualize and analyze epigenomic and transcriptomic next-generation sequencing data using a biologist-friendly, web-based graphical user interface without the need for programming expertize. Wardrobe can be installed on consumer-class hardware within an institutional local network. Analysis capabilities include predefined pipelines that allow the user to download data from either institutional core facilities or public databases, perform quality control, map reads and visualize data on a built-in mirror of the University of California, Santa Cruz (UCSC) genome browser. Reads per kilobase of transcript per million reads mapped (RPKMs) are calculated for RNA sequencing (RNA-Seq), and islands of enrichment are identified for chromatin immunoprecipitation sequencing (ChIP-Seq) and similar datasets. Advanced analysis capabilities include analyzing differential gene expression and binding and creating average tag density profiles and heatmaps. The Wardrobe package and documentation is available at https://code.google. com/p/genome-tools/.
Cartesian Control of a 3-DOF Electro-Pneumatic Actuated Motion Platform with Exteroceptive Pose Measurement

This paper presents a kinematic cartesian control scheme of 3 degree of freedom parallel robot driven by electro-pneumatic actuators based on exteroceptive pose measurement system. The inverse kinematics model is used to obtain the desired joint position coordinates from the time-varying trajectory given in task space. The proposal cascade control scheme in task space is based in two loops, the inner loop consisting in a decoupled joint position control and the outer loop which is designed to obtain an appropriate task space trajectory tracking. In order to avoid the on-line computation of direct kinematics an arrangement of inertial sensor and optical encoders are employed to provide the accurate pose measurement of end-effector. The experiment's results demonstrate the great performance of the proposed control scheme in industrial motion tracking application.
Decrease in diversity and shift in composition of the soil bacterial community were closely related to high available phosphorus in agricultural Fluvisols of North China

ABSTRACT Our objectives were to investigate whether AP affects the soil bacterial community composition and diversity in high-level available phosphorus (AP) soils. The bacterial community was analysed through high-throughput sequencing using the Illumina MiSeq platform. Fifteen soils, including barren land, cropland and greenhouse soils which were sandy loam Fluvisols, were selected from different fields in Beijing, China, with AP contents ranging from 5.03 to 391.45 mg kg−1. Statistical analyses revealed high AP (>100 mg kg−1) decreased alpha diversity (Shannon’s index, H’) but not beta diversity of the soil bacterial community. The sequencing of 16S rRNA genes showed that Proteobacteria, Bacteroidetes and Acidobacteria were the dominant phyla in sandy loam Fluvisols. AP, soil organic carbon (SOC) and total nitrogen (TN) had synergistic influence on the shift of the bacterial community composition. Moreover, AP was the main driving factor affecting the soil bacterial community composition compared with other environmental factors. The members of the Proteobacteria, Bacteroidetes and Actinobacteria belonging to copiotrophic taxa typically increased in relative abundance in high-P soils, while oligotrophic taxa (mainly Acidobacteria) decreased in relative abundance. Our results demonstrated that the bacterial community composition would shift from oligotrophic to copiotrophic with increasing levels of AP.
Grid cells encode local head direction

Grid and head direction codes represent cognitive spaces for navigation and memory. Pure grid cells generate grid codes that have been assumed to be independent of head direction, whereas conjunctive cells generate grid representations that are tuned to a single head direction. Here, we demonstrate that pure grid cells also encode head direction, but through distinct mechanisms. We show that individual firing fields of pure grid cells are tuned to multiple head directions, with the preferred sets of directions differing between fields. This local directionality is not predicted by previous continuous attractor or oscillatory interference models of grid firing but is accounted for by models in which pure grid cells integrate inputs from co-aligned conjunctive cells with firing rates that differ between their fields. Local directional signals from grid cells may contribute to downstream computations by decorrelating different points of view from the same location.
SynEM: Automated synapse detection for connectomics

Nerve tissue contains a high density of chemical synapses, about 1 per µm3 in the mammalian cerebral cortex. Thus, even for small blocks of nerve tissue, dense connectomic mapping requires the identification of millions to billions of synapses, of which about 80-90% are excitatory synapses. While the focus of connectomic data analysis has been on neurite reconstruction, synapse detection becomes limiting when datasets grow in size and dense mapping is required. Here, we report SynEM, a method for automated detection of excitatory synapses from conventionally en-bloc stained 3D electron microscopy image stacks. The approach is based on a segmentation of the image data and focuses on classifying borders between neuronal processes as synaptic or non-synaptic. SynEM yields 98% precision and recall in binary excitatory cortical connectomes with no user interaction. It scales to large volumes of cortical neuropil, plausibly even whole-brain datasets. SynEM removes the burden of manual synapse annotation for large densely mapped connectomes.
Information retrieval: a framework for recommending text-based classification algorithms

Dynamic content is transformed for use on the Internet by receiving an object and a feature for the object in a non-Internet format. The feature specifies an event and an action to be performed in connection with the object in response to the event. The object and the feature are converted into an Internet format. The object and the feature are encapsulated in the Internet format in an Internet file operable in an Internet environment to perform the action in connection with the object in response to the event. Inventors: Tran; Kyle (Plano, TX); Dieu; Kiet (Plano, TX) Assignee: Micrografx, Inc. (Richardson, TX) Appl. No.: 195802 Filed: November 18, 1998 Current U.S. Class: 717/2; 717/5; 345/333; 707/513 Intern'l Class: G06F 009/45 Field of Search: 717/1,2,5,10 707/103,200,513,522,523,524 345/333-339 References Cited [Referenced By] U.S. Patent Documents 5297285 Mar., 1994 Abrahamsson et al. 395/700. 5325533 Jun., 1994 McInerney et al. 395/700. 5339392 Aug., 1994 Risberg et al. 345/333. 5369778 Nov., 1994 Soucie et al. 707/103. 5375241 Dec., 1994 Walsh 395/700. 5499371 Mar., 1996 Henninger et al. 395/700. 5515490 May. , 1996 Buchanan et al. 395/807. 5519866 May. , 1996 Lawrence et al. 395/700. 5608908 Mar., 1997 Barghouti et al. 395/703. 5634124 May. , 1997 Khoyi et al. 707/103. 5649204 Jul., 1997 Pickett 395/710. 5659751 Aug., 1997 Heninger 395/685. 5675804 Oct., 1997 Sidik et al. 395/705. 5680619 Oct., 1997 Gudmundson et al. 395/701. 5790855 Aug., 1998 Faustini 395/701. 6101509 Aug., 2000 Hanson et al. 707/513. Other References Campbell, "Objectvision 2.0", Compute, Jul. 1992, pp 104-105. * Jolin et al., "Designing class liobraries for Visual builders", Dr. Dobb's Journal, Jun. 1998, pp 38-43. Primary Examiner: Chaki; Kakali Attorney, Agent or Firm: Baker Botts L.L. P.
Changes in Sugars Content and Some Biochemical Substances during Fruit Development in Different Persimmon Cultivars

The seasonal changes in the some biochemical substances in fruits of ten persimmon cultivars ( PCNA cultivars such as ‘O'Gosho’, ‘Fuyu’, ‘Hana Fuyu’ and ‘Jiro’, and non-PCNA cultivars such as ‘Vainiglia’, ‘ Hachiya’, ‘Kaki Tipo’, ‘Eylul’, ‘Amankaki’ and ‘Harbiye’) were determined in Dortyol-Hatay (Turkey) in the 12 th and 13 th year after planting (YAP) . All results were expressed on a fresh weight basis. The fructose and glucose were the predominant soluble sugar in different persimmon cultivars, and the amounts of fructose and glucose in persimmon fruits showed an apparent increase during fruit development. The total phenolics (TP), total flavonoids (TF) and soluble tannins (ST) concentration in fruits showed a continuous decrease from July to consumption maturity. The TP, TF and ST amounts of non-PCNA group fruits in tree maturity were higher more about 3.6, 4.9 and 5.6 fold than those of the PCNA group fruits, respectively. In consumption maturity, t he highest TP content of non-PCNA group fruits was found in ‘Eylul’ ( 131.3 mg/100 g) and ‘Hachiya’ ( 128.5 mg/100 g) cultivars. The fruits of non-PCNA cultivars had 2.3 and 1.9 fold more total antioxidant capacity (TAC) than those of PCNA cultivars according to FRAP and TEAC, respectively. In addition, t he results indicated that a good correlation between the TP content and TAC of persimmon cultivars (r = 0.98, at p <0.05).
Cognitive MIMO radio: an emerging paradigm for enhancing wireless access capability

In this contribution, we explore the access performance of cognitive multiple-input multiple-output (MIMO) radio, a novel paradigm that should combine the flexibility features of cognitive radio with the multiplexing capabilities of the multi-antenna one. As application scenario, we consider the (Rayleigh flat-faded) uplink of a WLAN working in infrastructure-mode, where non-cooperative multi-antenna cognitive radios attempt to join to a (possibly multi-antenna) access point (AP). The target of each radio is the competitive maximisation of own access throughput in the presence of (spatially-colored) multiple-access interference (MAI). Being the radios cognitive, they are capable to 'sense' the ambient-context and 'self-reconfigure' their access strategy via suitable power-allocation and spatial signal-shaping. Hence, by exploiting these cognitive capabilities, the access to the MIMO uplink is modelled as a non-cooperative strategic game. An iterative and scalable algorithm is developed that allows to play the resulting access game in a distributed and asynchronous way (under both best-effort and 'contracted-QoS' access policies) by resorting on the implementation of MAI-mitigation strategies.
Vehicle routing problem using clustering algorithm by maximum neural networks

The vehicle routing problem (VRP) is one of the well known optimization problems. This paper proposes a self-organization neural network model for obtaining the best solution for VRP. Our method consists of two phases. In the first phase, the customers are grouped to several delivery areas for vehicles assignment by maximum neuron model (MNM). In the second phase, the TSP in each area is solved by the elastic net model proposed by Andrew et. al. The clustering algorithm used in the first phase is a MNM. MNM is one of the neural networks proposed by Hopfield that can minimize a cost function by considering various constraints. In the second phase, the elastic net model is used to solve the problem and it obtain good solutions of TSP. Our method improves the precision of solution, and can be extended for large-scale problems. Our simulation result shows that MNM can achieve better solutions than other methods in certain conditions.
Packet interference in a heterogeneous cluster of Bluetooth piconets

In a Bluetooth piconet, the master essentially controls the channel. Due to an absence of coordination between independent masters while accessing the wireless medium, devices will encounter high packet interference if several piconets are simultaneously operating in the same area. Since even a headset and a mobile phone can be connected with a Bluetooth link, forming a piconet, it may not be unusual to find tens of independent piconets in crowded places like airports, international conferences, shopping malls, and so on. The study of packet interference gains importance, because it affects throughput of a piconet. Considering that all the portable devices can have a Bluetooth interface and people are highly mobile these days, it is not uncommon to find a cluster of piconets of both the 79-hop and the 23-hop types in the same area. In this paper, we present an analytical model of packet interference in a heterogeneous cluster of Bluetooth masters. By a heterogeneous cluster, we mean a cluster of piconets consisting of 23-hop and 79-hop types. Our analytic model is based on the idea of probabilistic graphs, where a node denotes a piconet and an edge denotes the probability of interference between two nodes.
Key actors in cancer therapy: epigenetic modifiers

Epigenetic reprogramming plays a crucial role in the tumorigenicity and maintenance of tumor-specific gene expression that especially occurs through DNA methylation and/or histone modifications. It has well-defined mechanisms. It is known that alterations in the DNA methylation pattern and/or the loss of specific histone acetylation/methylation markers are related to several hallmarks of cancer, such as drug resistance, stemness, epithelial-mesenchymal transition, and metastasis. It has also recently been highlighted that epigenetic alterations are critical for the regulation of the stemlike properties of cancer cells (tumor-initiating cells; cancer stem cells). Cancer stem cells are thought to be responsible for the recurrence of cancer which makes the patient return to the clinic with metastatic tumor tissue. Hence, the dysregulation of epigenetic machinery represents potential new therapeutic targets. Therefore, compounds with epigenetic activities have become crucial for developing new therapy regimens (e.g., antimetastatic agents) in the fight against cancer. Here, we review the epigenetic modifiers that have already been used in the clinic and/or in clinical trials, related preclinical studies in cancer therapy, and the smart combination strategies that target cancer stem cells along with the other cancer cells. The emerging role of epitranscriptome (RNA epigenetic) in cancer therapy has also been included in this review as a new avenue and potential target for the better management of cancer-beneficial epigenetic machinery.
Time-course transcriptomic study of phenolic metabolism and P450 enzymes in Pinus massoniana Lamb. after feeding by Monochamus alternatus Hope

ABSTRACT Pinus massoniana Lamb. is an economically important pioneer conifer in southern China. Monochamus alternatus is considered the vector insect of the Bursaphelenchus xylophilus, a nematode that can cause destructive pine wilt disease. Many phenolic compounds have been identified to play key roles in plant defense against biotic/abiotic damages in multiple ecosystems. In addition, the cytochrome p450 enzymes reportedly participate in various secondary metabolism pathways in plant. Surprisingly, however, no study has characterized putative phenolic defenses nor the P450 enzymes in P. massoniana inoculated by M. alternatus at the transcriptome level. Here, we compared changes in the whole transcriptome by RNA-Seq, finding that different expressed genes in phenolic biosynthetic related pathways were significantly enriched, indicating phenolic secondary metabolism in P. massoniana was activated after M. alternatus feeding. Using qRT-PCR, we then explored the changes of limiting enzyme genes in phenolic biosynthetic pathways during a series sampling time-point in both M. alternatus feeding treatment and control. Expression profile of target genes varied in their expression level, initial reaction time, peak time and reaction duration. This study provides a platform for better understanding molecular changes that could aid forest protection and breeding efforts to improve performance in the face of biotic damage.
Predicting Garden Path Sentences

This work is an investigation into part of the human sentence parsing mechanism (HSPM). The major test of the psychological validity of any model of the HSPM is that it fail on precisely those sentences that humans find to be garden paths. It is hypothesized that the HSPM consists of at least two processes. We call the first process the syntactic processor, and the second will be known as the semantic processor. It is hypothesized that the syntactic processor is unconscious, deterministic and fast, but limited. While most ambiguities are resolved on the basis of syntactic information, when the syntactic processor can no longer guarantee a correct analysis, semantic information is used to help resolve the ambiguity. This model leads to a better prediction and explanation of which sentences will cause people to garden path.