Miracle-dz/UniFAR-FTUs huggingface dataset:
Diversity Profiling and Design Using 3D Pharmacophores: Pharmacophore-Derived Queries (PDQ)

The current interest in combinatorial chemistry for lead generation has necessitated the development of methods for design and evaluation of the diversity of the resultant compound libraries. Such methods also have application in selecting diverse sets of compounds for general screening from corporate databases and in the analysis of large sets of structures to identify common patterns. In this paper we describe a novel methodology for calculating diversity and identifying common features based on the three-point pharmacophores expressed by a compound.1 The method has been implemented within the environment of the Chem-X molecular modeling package (ChemDBS-3D), using a systematic analysis of 3D distance space with three point combinations of six pharmacophoric groups. The strategy used to define the pharmacophores is discussed, including an in-house developed atom type parameterization. The method is compared with the related approach being developed into the ChemDiverse module of Chem-X. Results from an .
STRATEGI OPERASI DAN KEUNGGULAN BERSAING UNTUK MENINGKATKAN KINERJA PERUSAHAAN

Dalam beberapa tahun terakhir, pertumbuhan tingkat produksi dan pertumbuhan laba industri rokok di Kudus mengalami penurunan. Tujuan dari studi ini adalah untuk meningkatkan kinerja perusahaan dengan menerapkan keunggulan bersaing melalui strategi operasi di industri rokok di Kudus. Secara khusus, studi ini bertujuan untuk menganalisis pengaruh dimensi strategi operasi terhadap keunggulan bersaing dan kinerja perusahaan. Dimensi strategi operasi yang digunakan dalam studi ini adalah strategi efisiensi biaya, strategi kualitas, strategi pengiriman dan strategi flexibilitas. Pengumpulan data dilakukan dengan menggunakan kuesioner dari 100 sampel perusahaan rokok di Kota Kudus. Teknik analisis data yang digunakan adalah Structural Equation Modeling (SEM) dengan menggunakan program AMOS versi 21.0.
A Diffusion Process on Riemannian Manifold for Visual Tracking

Robust visual tracking for long video sequences is a research area that has many important applications. The main challenges include how the target image can be modeled and how this model can be updated. In this paper, we model the target using a covariance descriptor, as this descriptor is robust to problems such as pixel-pixel misalignment, pose and illumination changes, that commonly occur in visual tracking. We model the changes in the template using a generative process. We introduce a new dynamical model for the template update using a random walk on the Riemannian manifold where the covariance descriptors lie in. This is done using log-transformed space of the manifold to free the constraints imposed inherently by positive semidefinite matrices. Modeling template variations and poses kinetics together in the state space enables us to jointly quantify the uncertainties relating to the kinematic states and the template in a principled way. Finally, the sequential inference of the posterior distribution of the kinematic states and the template is done using a particle filter. Our results shows that this principled approach can be robust to changes in illumination, poses and spatial affine transformation. In the experiments, our method outperformed the current state-of-the-art algorithm - the incremental Principal Component Analysis method, particularly when a target underwent fast poses changes and also maintained a comparable performance in stable target tracking cases.
A robust implementation of the spatial pooler within the theory of Hierarchical Temporal Memory (HTM)

In this study learning reinforcement and noise rejection of a spatial pooler was examined, the first learning stage in a Hierarchical Temporal Memory (HTM) network. Hierarchical Temporal Memory (HTM) is a proposed model within the field of neuromorphic engineering. It describes a top down approach to understanding how the human brain performs higher reasoning and has application as a machine-learning algorithm. Final results displayed an increase in permanence values associated with the learning of the input pseudo-sensory signal and the system was able to accurately recognize the input signal with up to twenty percent of the binary data randomly modified. These results demonstrated conclusive evidence that HTM is a possible choice when machine intelligence is a system requirement.
STUDI KOMPARASI METODE STUDENT TEAMS ACHIEVEMENT DIVISION (STAD) DENGAN TEAM-ASSISTED INDIVIDUALIZATION (TAI) DITINJAU DARI PRESTASI BELAJAR SISWA KELAS X SEMESTER II PADA MATERI POKOK STOIKIOMETRI DI SMAN 4 SURAKARTA TAHUN AJARAN 2014/2015

Gabriella Yovi Pratama Putri. STUDI KOMPARASI METODE STUDENT TEAMS ACHIEVEMENT DIVISION (STAD) DENGAN TEAM-ASSISTED INDIVIDUALIZATION (TAI) DITINJAU DARI PRESTASI BELAJAR SISWA KELAS X SEMESTER II PADA MATERI POKOK STOIKIOMETRI DI SMAN 4 SURAKARTA TAHUN AJARAN 2014/2015. Skripsi. Surakarta. Fakultas Keguruan dan Ilmu Pendidikan. Universitas Sebelas Maret. 2016. Tujuan dari penelitian ini adalah untuk mengetahui metode yang dapat memberikan prestasi belajar lebih tinggi antara penggunaan metode pembelajaran Team Assisted Individualiation (TAI) dan metode Student Team Achievement Division (STAD) pada materi pokok Stoikiometri kelas X semester II SMA Negeri 4 Surakarta tahun ajaran 2014/2015. Penelitian ini adalah penelitian eksperimental. Rancangan yang digunakan adalah Randomized Posttest Control Group Design. Sampel dalam penelitian ini adalah siswa kelas X MIA 1 dan X MIA 6 di SMA Negeri 4 Surakarta yang diambil dengan teknik cluster random sampling. Teknik pengumpulan data prestasi belajar aspek pengetahuan menggunakan metode tes, prestasi belajar aspek sikap menggunakan angket, dan prestasi belajar aspek keterampilan menggunakan observasi. Teknik analisis data untuk pengujian hipotesis dilakukan dengan menggunakan uji t-pihak kanan. Berdasarkan hasil penelitian dapat disimpulkan bahwa: 1) Metode Team Assisted Individualization (TAI) memberikan prestasi belajar yang lebih tinggi daripada metode Student Teams Achievement Division (STAD) pada aspek pengetahuan, 2) Penggunaan metode pembelajaran TAI memberikan prestasi belajar aspek sikap yang sama dengan metode pembelajaran STAD, 3) Penggunaan metode pembelajaran TAI memberikan prestasi belajar aspek keterampilan yang sama dengan metode pembelajaran STAD pada materi pokok Stoikiometri kelas X semester II SMA Negeri 4 Surakarta tahun pelajaran 2014/2015. Hal ini terbukti dari hasil uji t-pihak kanan harga thitung prestasi belajar aspek pengetahuan (2,12) lebih besar dari ttabel (1,67), aspek sikap (-1,17) lebih kecil dari ttabel (1,67) dan aspek keterampilan (1,83) lebih kecil dari ttabel (1,67).
The Power of One-Retry in Reducing Discrepancy

Consider an on-line system in which a player is sequentially given independent and uniformly chosen points from $[0,1]$. After looking at each point the player is allowed to either keep it or replace it with a fresh uniformly chosen point. This choice may depend on the location of all previously kept points. However, only one retry is allowed at every step. The goal of the player is to reduce the discrepancy of the empirical distribution of points, that is -- to reduce the maximal deviation of the number of points in an interval from its expectation. Our main result is a retry strategy which guarantees discrepancy of $O(\log^3 N/N)$ with high probability (compare with $\Theta(1/\sqrt{N})$ without the power of one-retry). This answers a question of Benjamini. We also show that even if retry is allowed only with probability $\eta$ at every step for arbitrary $0<\eta$, a similar result holds. Finally, we show that the best maximum load obtainable by a one-retry strategy in the classical $N$ balls thrown into $N$ bins setting is $\Theta(\sqrt{\frac{\log N}{\log \log N}})$.
Zodiac: efficient impact analysis for storage area networks

Currently, the fields of impact analysis and policy based management are two important storage management topics that are not being treated in an integrated manner. Policy-based storage management is being adopted by most storage vendors because it lets system administrators specify high level policies and moves the complexity of enforcing these policies to the underlying management software. Similarly, proactive impact analysis is becoming an important aspect of storage management because system administrators want to assess the impact of making a change before actually making it. Impact analysis is increasingly becoming a complex task when one is dealing with a large number of devices and workloads. Adding the policy dimension to impact analysis (that is, what policies are being violated due to a particular action) makes this problem even more complex. In this paper we describe a new framework and a set of optimization techniques that combine the fields of impact analysis and policy management. In this framework system administrators define policies for performance, interoperability, security, availability, and then proactively assess the impact of desired changes on both the system observables and policies. Additionally, the proposed optimizations help to reduce the amount of data and the number of policies that need to be evaluated. This improves the response time of impact analysis operations. Finally, we also propose a new policy classification scheme that classifies policies based on the algorithms that can be used to optimize their evaluation. Such a classification is useful in order to efficiently evaluate user-defined policies. We present an experimental study that quantitatively analyzes the framework and algorithms on real life storage area network policies. The algorithms presented in this paper can be leveraged by existing impact analysis and policy engine tools.
An isoform of myosin XI is responsible for the translocation of endoplasmic reticulum in tobacco cultured BY-2 cells

The involvement of myosin XI in generating the motive force for cytoplasmic streaming in plant cells is becoming evident. For a comprehensive understanding of the physiological roles of myosin XI isoforms, it is necessary to elucidate the properties and functions of each isoform individually. In tobacco cultured BY-2 cells, two types of myosins, one composed of 175 kDa heavy chain (175 kDa myosin) and the other of 170 kDa heavy chain (170 kDa myosin), have been identified biochemically and immunocytochemically. From sequence analyses of cDNA clones encoding heavy chains of 175 kDa and 170 kDa myosin, both myosins have been classified as myosin XI. Immunocytochemical studies using a polyclonal antibody against purified 175 kDa myosin heavy chain showed that the 175 kDa myosin is distributed throughout the cytoplasm as fine dots in interphase BY-2 cells. During mitosis, some parts of 175 kDa myosin were found to accumulate in the pre-prophase band (PPB), spindle, the equatorial plane of a phragmoplast and on the circumference of daughter nuclei. In transgenic BY-2 cells, in which an endoplasmic reticulum (ER)-specific retention signal, HDEL, tagged with green fluorescent protein (GFP) was stably expressed, ER showed a similar behaviour to that of 175 kDa myosin. Furthermore, this myosin was co-fractionated with GFP–ER by sucrose density gradient centrifugation. From these findings, it was suggested that the 175 kDa myosin is a molecular motor responsible for translocating ER in BY-2 cells.
Multispectral fingerprint biometrics

A novel fingerprint sensor is described that combines a multispectral imager (MSI) with a conventional optical fingerprint sensor. The goal of this combination is a fingerprint sensor with improved usability and security relative to standard technology. The conventional sensor that was used in this research is a commercially available system based on total internal reflectance (TIR). It was modified to accommodate an MSI sensor in such a way that both MSI and TIR images are able to be collected when a user places his/her finger on the sensor platen. The MSI data were preprocessed to enhance fingerprint features. Both the preprocessed MSI images and the TIR images were then passed to a commercial fingerprint software package for minutiae detection and matching. A multiperson study was conducted to test the relative performance characteristics of the two types of finger data under typical office conditions. Results demonstrated that the TIR sensor performance was degraded by a large number of poor quality fingerprint images, likely due to a large percentage of samples taken on people with notably dry skin. The corresponding MSI data showed no such degradation and produced significantly better results. A selective combination of both modalities is shown to offer the potential of further performance improvements.
Dual Screening: Examining Social Predictors and Impact on Online and Offline Political Participation Among Taiwanese Internet Users

This study investigates how social factors affect Taiwanese Internet users’ dual screening use and its impact on online and offline political participation. The Web survey recruits 961 dual screen users. Structural equation modeling results show that bridging social capital and perceived social presence are significantly associated with dual screening use. Dual screening is positively related to online and offline political participation. Dual screening use strongly influences offline political participation when mediated by online political participation. Moreover, alternative media trust is positively related to online political participation, whereas mainstream media trust shows a negative association.
Effects of Genetically Engineered Stem Cells Expressing Cytosine Deaminase and Interferon-Beta or Carboxyl Esterase on the Growth of LNCaP Prostate Cancer Cells

The risk of prostate cancer has been increasing in men by degrees. To develop a new prostate cancer therapy, we used a stem cell-derived gene directed prodrug enzyme system using human neural stem cells (hNSCs) that have a tumor-tropic effect. These hNSCs were transduced with the therapeutic genes for bacterial cytosine deaminase (CD), alone or in combination with the one encoding human interferon-beta (IFN-β) or rabbit carboxyl esterase (CE) to generate HB1.F3. CD, HB1.F3. CD.IFN-β, and HB1.F3. CE cells, respectively. CD enzyme can convert the prodrug 5-fluorocytosine (5-FC) into the activated form 5-fluorouracil (5-FU). In addition, CE enzyme can convert the prodrug CPT-11 into a toxic agent, SN-38. In our study, the human stem cells were found to migrate toward LNCaP human prostate cancer cells rather than primary cells. This phenomenon may be due to interactions between chemoattractant ligands and receptors, such as VEGF/VEGFR2 and SCF/c-Kit, expressed as cancer and stem cells, respectively. The HB1.F3. CE, HB.F3. CD, or HB1.F3. CD.IFN-β cells significantly reduced the LNCaP cell viability in the presence of the prodrugs 5-FC or CPT-11. These results indicate that stem cells expressing therapeutic genes can be used to develop a new strategy for selectively treating human prostate cancer.
WISC-III Freedom from Distractibility Index and Measures of Attention in Children.

The Freedom from Distractability Index (FFD) on the Wechsler Intelligence Scale for ChildrenThird Edition (WISC-III) is an index score comprised of the sum of the scores on the Arithmetic and Digit Span subsets. Although the FFD is often interpreted as a measure of attention and concentration, there are a number of other possible explanations for performance in this scale, including anxiety, number facility, auditory short-term memory, and working memory. Comparisons were made across ADHD and non-ADHD groups of children on several measures used to assess attention in children between the ages of 9-15. Results indicated the FFD index shares greater variance with measures of achievement than of attention or memory. Additionally, correlations with measures of attention were low, with the exception of the CMS Attention/Concentration scale. (Contains 15 references and 1 table.) (Author) Reproductions supplied by EDRS are the best that can be made from the original document.
Bathymetrical distribution and size structure of cold-water coral populations in the Cap de Creus and Lacaze-Duthiers canyons (northwestern Mediterranean)

Submarine canyons are known as one of the seafloor morphological features where living cold-water coral (CWC) communities develop in the Mediterranean Sea. We investigated the CWC community of the two westernmost submarine canyons of the Gulf of Lions canyon system: the Cap de Creus Canyon (CCC) and Lacaze-Duthiers Canyon (LDC). Coral associations have been studied through video material recorded by means of a manned submersible and a remotely operated vehicle. Video transects have been conducted and analyzed in order to obtain information on (1) coral bathymetric distribution and density patterns, (2) size structure of coral populations, and (3) coral colony position with respect to the substrate. Madrepora oculata was the most abundant CWC in both canyons, while Lophelia pertusa and Dendrophyllia cornigera mostly occurred as isolated colonies or in small patches. An important exception was detected in a vertical cliff in LDC where a large L. pertusa framework was documented. This is the first record of such an extended L. pertusa framework in the Mediterranean Sea. In both canyons coral populations were dominated by medium and large colonies, but the frequent presence of small-sized colonies also indicate active recruitment. The predominant coral orientation (90° and 135°) is probably driven by the current regime as well as by the sediment load transported by the current flows. In general, no clear differences were observed in the abundance and in the size structure of the CWC populations between CCC and LDC, despite large differences in particulate matter between canyons.
Catching Time-Reversed Microwave Coherent State Photons with 99.4% Absorption Efficiency

(Received 15 November 2013; revised manuscript received 24 January 2014; published 28 May 2014) We demonstrate a high-efficiency deterministic quantum receiver to convert flying qubits to stationary qubits. We employ a superconducting resonator, which is driven with a shaped pulse through an adjustable coupler. For the ideal “time-reversed” shape, we measure absorption and receiver fidelities at the single microwave photon level of, respectively, 99.41% and 97.4%. These fidelities are comparablewith gates and measurement and exceed the deterministic quantum communication and computation fault-tolerant thresholds, enabling new designs of deterministic qubit interconnects and hybrid quantum computers.
The fifth rule of “ design with discourse ” for the orthogonal representation of moral concerns in design from the ethics level

The current version of the hierarchical representation of artifacts we have introduced [Sekiguchi 10] is not necessarily suitable to directly express self interests of the designer. For example, when I design artifacts from the ethics level, values such as to make me happier, to make my significant persons happier, and to make me earn a lot of money can hardly appear in the hierarchical representation of artifacts. Therefore, we are not supposed to investigate whether or not the designer’s morals is just, though there is a system to investigate whether or not the design is ethical which means valuable for the whole world. It has not been a problem so far, because moral concerns are not indispensable for the designed artifacts themselves and they were considered to be “secondary” ([Sekiguchi 10] p. 6) for the framework of design from the ethics level. As a result, we have permitted ourselves to secretly ignore moral concerns even if we become aware of them. But it became a problem now because it was figured out that to force a designer to secretly ignore moral concerns must make him or her confuse. To design artifacts more clearly, the confusion must be removed. Then, one probable solution is a way to express the ignored information systematically, because it will allow the designer to manage moral concerns intentionally and practice better design from the ethics level. Moreover, to express moral concerns can be useful for others. For example, it may help others understand and evaluate the design more clearly. This is the reason we will introduce what is called “orthogonal representation of moral concerns” and “the fifth rule of design with discourse. ” They
Predicting reliable regions in protein sequence alignments

MOTIVATION Protein sequence alignments have a myriad of applications in bioinformatics, including secondary and tertiary structure prediction, homology modeling, and phylogeny. Unfortunately, all alignment methods make mistakes, and mistakes in alignments often yield mistakes in their application. Thus, a method to identify and remove suspect alignment positions could benefit many areas in protein sequence analysis. RESULTS We tested four predictors of alignment position reliability, including near-optimal alignment information, column score, and secondary structural information. We validated each predictor against a large library of alignments, removing positions predicted as unreliable. Near-optimal alignment information was the best predictor, removing 70% of the substantially-misaligned positions and 58% of the over-aligned positions, while retaining 86% of those aligned accurately.
Climate of the Past Statistical issues about solar – climate relations

The relationship between solar activity and temperature variation is a frequently discussed issue in climatology. This relationships is usually hypothesized on the basis of statistical analyses of temperature time series and time series related to solar activity. Recent studies ( Le Mouël et al., 2008, 2009; Courtillot et al., 2010) focus on the variabilities of temperature and solar activity records to identify their relationships. We discuss the meaning of such analyses and propose a general framework to test the statistical significance for these variability-based analyses. This approach is illustrated using European temperature data sets and geomagnetic field variations. We show that tests for significant correlation between observed temperature variability and geomagnetic field variability is hindered by a low number of degrees of freedom introduced by excessively smoothing the variability-based statistics.
Antibiotic pressure compensates the biological cost associated with Pseudomonas aeruginosa hypermutable phenotypes in vitro and in a murine model of chronic airways infection.

OBJECTIVES Hypermutable strains of Pseudomonas aeruginosa frequently emerge during chronic airways infection in cystic fibrosis (CF) patients. While the increased accumulation of mutations by hypermutable strains determines a biological cost for the colonization of secondary environments, the mutator phenotypes might confer a selective advantage under antibiotic treatment in a CF airways environment. METHODS To test this hypothesis, the reference strain PAO1 and clonal pairs of CF clinical hypermutable and wild-type P. aeruginosa strains belonging to different genotypes were subjected to competition experiments in vitro and in a mouse model of chronic infection. RESULTS Both in vitro and in vivo, under antibiotic selection pressure, clinical hypermutable P. aeruginosa strains and the reference PAO1ΔmutS outcompeted their wild-type strains, promoting P. aeruginosa hypermutable strains in the airways colonization. This advantage for the hypermutable strain did not occur in the absence of antibiotic treatments. Severe histopathological lesions were detected during chronic murine airways infection after antibiotic pressure, indicating that the advantage of the hypermutable population in the lungs may contribute to disease progression. CONCLUSIONS Overall, these results showed that P. aeruginosa hypermutability, previously associated with a biological cost, increases colonization potential under selection pressure in a context of CF chronic airways infection and can contribute to lung damage during long-term persistence.