Browsing by Issue Date, starting with "2013-01-17"

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Analysis of unequal error protection for LDPCA codes
(2013-01-17)
Sun, Y. -C.
;
Tsai, W. -J.
;
資訊工程學系
;
Department of Computer Science
Unequal error protection extensions of low density parity check accumulate (UEP-LDPCA) codes are discussed and several potential applications are proposed. Two UEP-LDPCA schemes are analysed and code parameters are optimised using a density evolution algorithm. Simulation results show that the extensions have the significant unequal error protection property. This activates new directions for existing applications.
Enhanced photoactivity of Cu-deposited titanate nanotubes for removal of bisphenol A
(2013-01-17)
Doong, Ruey-an
;
Chang, Sue-min
;
Tsai, Chia-wei
;
環境工程研究所
;
Institute of Environmental Engineering
One-dimensional nanotubes are promising nanostructured materials for a wide variety of environmental applications. In this study, the Cu-deposited titanate nanotubes (TNTs) were fabricated using an alkaline hydrothermal method at 150 degrees C and then 0.5-2 wt% Cu(II) ions were photodeposited onto the calcined TNTs at 500 degrees C for enhanced photodegradation of bisphenol A (BPA) under illumination of 365 nm UV light. The as-synthesized TNTs showed tubular structures with the outer diameter and inter-layer spacing of 7-10 and 0.8 nm, respectively. The X-ray absorption near-edge spectral results provided a strong support on the partially structural change from layered trititanate to anatase TiO2 through the distortion of octahedral TiO6 unit at 500 degrees C and the production of mixture of CuO and Cu2O after photodeposition of Cu ions, resulting in the formation of Cu-deposited TiO2/TNT nanocomposites to enhance the photocatalytic activity. A nearly complete removal of BPA by the Cu-deposited TiO2/TNTs was observed, and the pseudo-first-order rate constants (k(obs)) for BPA photodegradation by Cu-deposited TiO2/TNTs at pH 7.0 were 1.8-5.2 and 4.3-12.7 times higher than those of pure Degussa P25 and ST01 TiO2, respectively. In addition, the k(obs) for BPA photodegradation reached the maximum value of 0.253 +/- 0.032 min(-1) at 1 wt% Cu(II). The X-ray photoelectron spectra showed that the ratio of Cu2O to total Cu increased from 3.2% in the dark to 35.2% after illumination of 365 nm UV light for 5 min. In addition, electron paramagnetic resonance results indicated that the copper ions could serve as the electron mediators to prolong the retention time of photo-generated radicals, resulting in the enhancement of photodegradation efficiency and rate of BPA by Cu-deposited TiO2/TNTs. (C) 2012 Elsevier B.V. All rights reserved.
Neutral-Fragmentation Paths of Methane Induced by Intense Ultrashort IR Laser Pulses: Ab Initio Molecular Orbital Approach
(2013-01-17)
Koseki, Shiro
;
Shimakura, Noriyuki
;
Teranishi, Yoshiaki
;
Lin, Sheng Hsien
;
Fujimura, Yuichi
Instantaneous (laser-field-dependent) potential energy curves leading to neutral fragmentations of methane were calculated at several laser intensities from 1.4 x 10(13) to 1.2 x 10(14) W/cm(2) (from 1.0 x 10(10) to 3.0 X 10(10) V/m) using ab initio molecular orbital (MO) methods to validate the observation of neutral fragmentations induced by intense femtosecond IR pulses (Kong et al. J. Chem. Phys. 2006, 125, 133320). Two fragmentation paths, CH2 + 2H and CH2 + H-2, in T-1(2) superexcited states that are located in the energy range of 12-16 eV were considered as the reaction paths because these states are responsible for Jahn-Teller distortion opening up reaction paths during ultrashort pulses. As field intensity increased, the low-lying excited (1)A(1) states originated from the Jahn-Teller T-1(2) states were substantially stabilized along the neutral-fragment path CH4 -> CH2 + 2H and were located below the ionization threshold. On the other hand, the low-lying excited B-1(1) states, which also originate from the Jahn-Teller T-1(2) states, were embedded on the ionized state along the dissociation path to CH2 + H-2. This indicates that ionic fragments, rather than neutral ones, are produced along the CH2 + H-2 path. The computational results support neutral fragmentations through superexcited states proposed by Kong et al.
Enhanced Magnetic Anisotropy via Quasi-Molecular Magnet at Organic-Ferromagnetic Contact
(2013-01-17)
Hsu, Yao-Jane
;
Lai, Yu-Ling
;
Chen, Chih-Han
;
Lin, Ying-Chang
;
Chien, Hsiu-Yun
To realize the origin of efficient spin injection at organic-ferromagnetic contact in organic spintronics, we have implemented the formation of quasi-molecular magnet via surface restructuring of a strong organic acceptor, tetrafluoro-tetracyanoquinodimethane (F4-TCNQ), in contact with ferromagnetic cobalt. Our results demonstrate a spin-polarized F4-TCNQ layer and a remarkably enhanced magnetic anisotropy of the Co film. The novel magnetic properties are contributed from strong magnetic coupling caused by the molecular restructuring that displays an angular anchoring conformation of CN and upwardly protruding fluorine atoms. We conclude that the pi bonds of CN, instead of the lone-pair electrons of N atoms, contribute to the hybridization-induced magnetic coupling between CN and Co and generate a superior magnetic order on the surface.
Observation of disordered wave functions with conical second-harmonic generation and verification of transition from extended to prelocalized states in weak localization
(2013-01-18)
Lin, Y. C.
;
Tuan, P. H.
;
Yu, Y. T.
;
Liang, H. C.
;
Su, K. W.
We experimentally acquire the disordered wave functions from the conical second-harmonic generation to explore the variation of weak localization from extended to prelocalized states. We numerically verify that the experimental density distributions with different extents of weak localization can be excellently analyzed with a reduced version of the nonlinear sigma model (RV-NLS model). Moreover, we demonstrate that the chi-square distributions with fractional degrees of freedom are practically equivalent to the density distributions of the RV-NLS model. Our finding indicates that the concept of fractional degrees of freedom can be applied to the statistical properties of disordered wave functions. DOI: 10.1103/PhysRevB.87.045117
NEUTRINO FLAVOR RATIOS ON THE EARTH FOR DECAY AND OSCILLATION SCENARIOS
(2013-01-20)
Liu, T. C.
;
Lai, Kwang-Chang
;
Lin, Guey-Lin
;
物理研究所
;
Institute of Physics
Due to flavor transition mechanisms in neutrino propagations, both neutrino oscillation and decay, neutrinos flavor ratio at astrophysical sources can quite different from observed ratios on the Earth.(1) We use the recent global fitting result of the mixing angle values(2) to determine the allowed neutrino flavor ratios on the Earth for standard neutrino oscillation and general decay mechanisms. In this analysis, four types of the neutrino decay mechanisms can be distinguished from the oscillation case easily with arbitrary initial neutrino flavor ratio and the other four types of neutrino decay mechanisms can be distinguished from the oscillation case with the specified source. The rest types of neutrino decays strongly overlap with the oscillation and cannot be identified.
行走輔助系統
(2013-01-21)
宋開泰
;
江信毅
;
黃科棟
本發明係揭露一種行走輔助系統，其包含運動模組、電流感測模組及中央控制模組。其中，各運動模組包含全向輪、馬達、軸編碼器及控制器，馬達係連接全向輪並驅動全向輪進行全向移動，軸編碼器則連接馬達並擷取其轉速而對應產生轉速值，控制器則連接軸編碼器及馬達，並接收轉速值及控制馬達。電流感測模組係連接馬達並感測馬達之電流而對應產生電流值。中央控制模組則連接運動模組及電流感測模組，且根據所接收到之轉速值及電流值控制運動模組。其中，當使用者未對行走輔助系統施力時，中央控制模組即控制運動模組靜止，而當使用者對行走輔助系統施外力時，中央控制模組即根據外力控制運動模組運作。
感測元件、製造方法及其生物檢測系統
(2013-01-21)
許鉦宗
;
陳振嘉
;
李耀坤
;
張可欣
本發明係揭露一種感測元件、製造方法及其生物檢測系統。此感測元件包含一具有通道之場效應電晶體、一參考電極、一第一頓化層、一第二頓化層以及一微流道。第一頓化層用以包覆場效應電晶體之一端，第二頓化層用以包覆場效應電晶體之另一端，微流道與第一頓化層及第二頓化層接合，使其微流道橫跨於通道場效應電晶體通道上。場效應電晶體一通道表面以化學或物理方法修飾之，當一待測樣品透過微流道接觸通道之表面時，通道場效應電晶體之電導即可隨之改變達成微量偵測。
管網滲漏偵測方法與裝置
(2013-01-21)
黃彥禎
;
葉弘德
本發明提出一種管網滲漏偵測方法，其包括步驟：建構一管網，該管網中具有至少一滲漏點與一流場；計算該流場的一穩態解；對該流場施加一擾動；以及基於該穩態解而計算該流場的一暫態解以獲得與該至少一滲漏相關的滲漏資訊。
Probing into the metal-graphene interface by electron transport measurements
(2013-01-21)
Lin, Yen-Fu
;
Wang, Sheng-Tsung
;
Pao, Chia-Chen
;
Li, Ya-Chi
;
Lai, Cheng-Chieh
Metal-graphene contact recently attracts much attention because of its effects on the performance and the operational speed of graphene field-effect transistor. Simple two-probe graphene devices on mechanically exfoliated graphene flakes are fabricated and the temperature behavior of resistance is measured from room temperature down to liquid helium temperature for the study of electron transport in the interface. Comparing experimental data with several different transport theories, it is confirmed that the model of fluctuation-induced tunneling conduction describes precisely the electron transport and indicates the existence of a thin insulating layer in the metal-graphene interface. Through the interface probing by electron transport measurements, the way to reduce the contact resistance is suggested. (C) 2013 American Institute of Physics. [http://dx.doi.org/10.1063/1.4789554]
Inferring homologous protein-protein interactions through pair position specific scoring matrix
(2013-01-21)
Lin, Chun-Yu
;
Chen, Yung-Chiang
;
Lo, Yu-Shu
;
Yang, Jinn-Moon
;
生物科技學系
Background: The protein-protein interaction (PPI) is one of the most important features to understand biological processes. For a PPI, the physical domain-domain interaction (DDI) plays the key role for biology functions. In the post-genomic era, to rapidly identify homologous PPIs for analyzing the contact residue pairs of their interfaces within DDIs on a genomic scale is essential to determine PPI networks and the PPI interface evolution across multiple species. Results: In this study, we proposed "pair Position Specific Scoring Matrix (pairPSSM)" to identify homologous PPIs. The pairPSSM can successfully distinguish the true protein complexes from unreasonable protein pairs with about 90% accuracy. For the test set including 1,122 representative heterodimers and 2,708,746 non-interacting protein pairs, the mean average precision and mean false positive rate of pairPSSM were 0.42 and 0.31, respectively. Moreover, we applied pairPSSM to identify similar to 450,000 homologous PPIs with their interacting domains and residues in seven common organisms (e.g. Homo sapiens, Mus musculus, Saccharomyces cerevisiae and Escherichia coli). Conclusions: Our pairPSSM is able to provide statistical significance of residue pairs using evolutionary profiles and a scoring system for inferring homologous PPIs. According to our best knowledge, the pairPSSM is the first method for searching homologous PPIs across multiple species using pair position specific scoring matrix and a 3D dimer as the template to map interacting domain pairs of these PPIs. We believe that pairPSSM is able to provide valuable insights for the PPI evolution and networks across multiple species.
兆赫波分束器裝置
(2013-01-21)
趙如蘋
;
潘犀靈
;
林家任
;
林俊賢
本發明揭露一種兆赫波分束器，其用以分束一兆赫波成為多個兆赫波。兆赫波分束器包括液晶相位光柵與電壓控制單元。電壓控制單元耦接液晶相位光柵，且提供一控制電壓來改變液晶相位光柵中的液晶分子的排列，使得兆赫波通過液晶相位光柵而分成多個兆赫波。
影像處理的方法
(2013-01-21)
吳炳飛
;
陳昭榮
;
高志忠
;
鐘孟良
;
瞿忠正
本發明為一種影像處理的方法。首先，設定初始影像背景資訊；再擷取即時影像資訊；接著計算初始影像背景資訊與即時影像的色彩強度資訊。跟著，調整即時影像資訊；然後計算移動物體資訊；最後，進行追蹤移動物體資訊。本發明可不受架設高度的影響而提升偵測的準確率。
An enhanced computational platform for investigating the roles of regulatory RNA and for identifying functional RNA motifs
(2013-01-21)
Chang, Tzu-Hao
;
Huang, Hsi-Yuan
;
Hsu, Justin Bo-Kai
;
Weng, Shun-Long
;
Horng, Jorng-Tzong
Background: Functional RNA molecules participate in numerous biological processes, ranging from gene regulation to protein synthesis. Analysis of functional RNA motifs and elements in RNA sequences can obtain useful information for deciphering RNA regulatory mechanisms. Our previous work, RegRNA, is widely used in the identification of regulatory motifs, and this work extends it by incorporating more comprehensive and updated data sources and analytical approaches into a new platform. Methods and results: An integrated web-based system, RegRNA 2.0, has been developed for comprehensively identifying the functional RNA motifs and sites in an input RNA sequence. Numerous data sources and analytical approaches are integrated, and several types of functional RNA motifs and sites can be identified by RegRNA 2.0: (i) splicing donor/acceptor sites; (ii) splicing regulatory motifs; (iii) polyadenylation sites; (iv) ribosome binding sites; (v) rho-independent terminator; (vi) motifs in mRNA 5'-untranslated region (5'UTR) and 3'UTR; (vii) AU-rich elements; (viii) C-to-U editing sites; (ix) riboswitches; (x) RNA cis-regulatory elements; (xi) transcriptional regulatory motifs; (xii) user-defined motifs; (xiii) similar functional RNA sequences; (xiv) microRNA target sites; (xv) non-coding RNA hybridization sites; (xvi) long stems; (xvii) open reading frames; (xviii) related information of an RNA sequence. User can submit an RNA sequence and obtain the predictive results through RegRNA 2.0 web page. Conclusions: RegRNA 2.0 is an easy to use web server for identifying regulatory RNA motifs and functional sites. Through its integrated user-friendly interface, user is capable of using various analytical approaches and observing results with graphical visualization conveniently. RegRNA 2.0 is now available at http://regrna2.mbc.nctu.edu.tw.
配位化合物及用於製備血池及目標化對比劑之金屬錯合物
(2013-01-21)
王雲銘
;
陳亭蓉
本發明提供一種由下式(I)所示之配位化合物： (I)，式(I)之各個取代基的定義如說明書及申請專利範圍所界定。本發明亦提供一種穩定的金屬錯合物，可用於製備血池對比劑或目標化對比劑。
An enhanced computational platform for investigating the roles of regulatory RNA and for identifying functional RNA motifs
(2013-01-21)
Chang, Tzu-Hao
;
Huang, Hsi-Yuan
;
Hsu, Justin Bo-Kai
;
Weng, Shun-Long
;
Horng, Jorng-Tzong
Background: Functional RNA molecules participate in numerous biological processes, ranging from gene regulation to protein synthesis. Analysis of functional RNA motifs and elements in RNA sequences can obtain useful information for deciphering RNA regulatory mechanisms. Our previous work, RegRNA, is widely used in the identification of regulatory motifs, and this work extends it by incorporating more comprehensive and updated data sources and analytical approaches into a new platform. Methods and results: An integrated web-based system, RegRNA 2.0, has been developed for comprehensively identifying the functional RNA motifs and sites in an input RNA sequence. Numerous data sources and analytical approaches are integrated, and several types of functional RNA motifs and sites can be identified by RegRNA 2.0: (i) splicing donor/acceptor sites; (ii) splicing regulatory motifs; (iii) polyadenylation sites; (iv) ribosome binding sites; (v) rho-independent terminator; (vi) motifs in mRNA 5'-untranslated region (5'UTR) and 3'UTR; (vii) AU-rich elements; (viii) C-to-U editing sites; (ix) riboswitches; (x) RNA cis-regulatory elements; (xi) transcriptional regulatory motifs; (xii) user-defined motifs; (xiii) similar functional RNA sequences; (xiv) microRNA target sites; (xv) non-coding RNA hybridization sites; (xvi) long stems; (xvii) open reading frames; (xviii) related information of an RNA sequence. User can submit an RNA sequence and obtain the predictive results through RegRNA 2.0 web page. Conclusions: RegRNA 2.0 is an easy to use web server for identifying regulatory RNA motifs and functional sites. Through its integrated user-friendly interface, user is capable of using various analytical approaches and observing results with graphical visualization conveniently. RegRNA 2.0 is now available at http://regrna2.mbc.nctu.edu.tw.
共平面天線單元及共平面天線
(2013-01-21)
陳富強
;
高誠隆
本發明係揭露一種共平面天線單元及共平面天線。其中利用獨特的後設材料(meta-material)性質，設計一個平衡式一維複合左右手(CRLH)洩漏波天線。以共平面波導為架構，利用金屬-絕緣體-金屬(Metal-insulator-Metal,MIM)電容及接地傳輸線來設計出共平面天線單元並實現一維縮短化複合左右手洩漏波天線。所設計的天線係採用平面印刷電路板技術所實現，且有輕薄短小與低姿態的潮流以及良好的天線輻射特性。
A computational approach for identifying microRNA-target interactions using high-throughput CLIP and PAR-CLIP sequencing
(2013-01-21)
Chou, Chih-Hung
;
Lin, Feng-Mao
;
Chou, Min-Te
;
Hsu, Sheng-Da
;
Chang, Tzu-Hao
Background: MicroRNAs (miRNAs) play a critical role in down-regulating gene expression. By coupling with Argonaute family proteins, miRNAs bind to target sites on mRNAs and employ translational repression. A large amount of miRNA-target interactions (MTIs) have been identified by the crosslinking and immunoprecipitation (CLIP) and the photoactivatable-ribonucleoside-enhanced CLIP (PAR-CLIP) along with the next-generation sequencing (NGS). PAR-CLIP shows high efficiency of RNA co-immunoprecipitation, but it also lead to T to C conversion in miRNA-RNA-protein crosslinking regions. This artificial error obviously reduces the mappability of reads. However, a specific tool to analyze CLIP and PAR-CLIP data that takes T to C conversion into account is still in need. Results: We herein propose the first CLIP and PAR-CLIP sequencing analysis platform specifically for miRNA target analysis, namely miRTarCLIP. From scratch, it automatically removes adaptor sequences from raw reads, filters low quality reads, reverts C to T, aligns reads to 3'UTRs, scans for read clusters, identifies high confidence miRNA target sites, and provides annotations from external databases. With multi-threading techniques and our novel C to T reversion procedure, miRTarCLIP greatly reduces the running time comparing to conventional approaches. In addition, miRTarCLIP serves with a web-based interface to provide better user experiences in browsing and searching targets of interested miRNAs. To demonstrate the superior functionality of miRTarCLIP, we applied miRTarCLIP to two public available CLIP and PAR-CLIP sequencing datasets. miRTarCLIP not only shows comparable results to that of other existing tools in a much faster speed, but also reveals interesting features among these putative target sites. Specifically, we used miRTarCLIP to disclose that T to C conversion within position 1-7 and that within position 8-14 of miRNA target sites are significantly different (p value = 0.02), and even more significant when focusing on sites targeted by top 102 highly expressed miRNAs only (p value = 0.01). These results comply with previous findings and further suggest that combining miRNA expression and PAR-CLIP data can improve accuracy of the miRNA target prediction. Conclusion: To sum up, we devised a systematic approach for mining miRNA-target sites from CLIP-seq and PAR-CLIP sequencing data, and integrated the workflow with a graphical web-based browser, which provides a user friendly interface and detailed annotations of MTIs. We also showed through real-life examples that miRTarCLIP is a powerful tool for understanding miRNAs. Our integrated tool can be accessed online freely at http://miRTarCLIP.mbc.nctu.edu.tw.
Inferring homologous protein-protein interactions through pair position specific scoring matrix
(2013-01-21)
Lin, Chun-Yu
;
Chen, Yung-Chiang
;
Lo, Yu-Shu
;
Yang, Jinn-Moon
;
生物科技學系
Background: The protein-protein interaction (PPI) is one of the most important features to understand biological processes. For a PPI, the physical domain-domain interaction (DDI) plays the key role for biology functions. In the post-genomic era, to rapidly identify homologous PPIs for analyzing the contact residue pairs of their interfaces within DDIs on a genomic scale is essential to determine PPI networks and the PPI interface evolution across multiple species. Results: In this study, we proposed "pair Position Specific Scoring Matrix (pairPSSM)" to identify homologous PPIs. The pairPSSM can successfully distinguish the true protein complexes from unreasonable protein pairs with about 90% accuracy. For the test set including 1,122 representative heterodimers and 2,708,746 non-interacting protein pairs, the mean average precision and mean false positive rate of pairPSSM were 0.42 and 0.31, respectively. Moreover, we applied pairPSSM to identify similar to 450,000 homologous PPIs with their interacting domains and residues in seven common organisms (e.g. Homo sapiens, Mus musculus, Saccharomyces cerevisiae and Escherichia coli). Conclusions: Our pairPSSM is able to provide statistical significance of residue pairs using evolutionary profiles and a scoring system for inferring homologous PPIs. According to our best knowledge, the pairPSSM is the first method for searching homologous PPIs across multiple species using pair position specific scoring matrix and a 3D dimer as the template to map interacting domain pairs of these PPIs. We believe that pairPSSM is able to provide valuable insights for the PPI evolution and networks across multiple species.
交大e-News第134期
(2013-01-21)
Secretariat
;
國立交通大學秘書室