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Sample records for accurate trna recognition

  1. Saturation of recognition elements blocks evolution of new tRNA identities

    Saint-Léger, Adélaïde; Bello, Carla; Dans, Pablo D.; Torres, Adrian Gabriel; Novoa, Eva Maria; Camacho, Noelia; Orozco, Modesto; Kondrashov, Fyodor A.; Ribas de Pouplana, Lluís

    2016-01-01

    Understanding the principles that led to the current complexity of the genetic code is a central question in evolution. Expansion of the genetic code required the selection of new transfer RNAs (tRNAs) with specific recognition signals that allowed them to be matured, modified, aminoacylated, and processed by the ribosome without compromising the fidelity or efficiency of protein synthesis. We show that saturation of recognition signals blocks the emergence of new tRNA identities and that the rate of nucleotide substitutions in tRNAs is higher in species with fewer tRNA genes. We propose that the growth of the genetic code stalled because a limit was reached in the number of identity elements that can be effectively used in the tRNA structure. PMID:27386510

  2. Substrate tRNA Recognition Mechanism of a Multisite-specific tRNA Methyltransferase, Aquifex aeolicus Trm1, Based on the X-ray Crystal Structure*

    Awai, Takako; Ochi, Anna; Ihsanawati,; Sengoku, Toru; Hirata, Akira; Bessho, Yoshitaka; Yokoyama, Shigeyuki; Hori, Hiroyuki

    2011-01-01

    Archaeal and eukaryotic tRNA (N2,N2-guanine)-dimethyltransferase (Trm1) produces N2,N2-dimethylguanine at position 26 in tRNA. In contrast, Trm1 from Aquifex aeolicus, a hyper-thermophilic eubacterium, modifies G27 as well as G26. Here, a gel mobility shift assay revealed that the T-arm in tRNA is the binding site of A. aeolicus Trm1. To address the multisite specificity, we performed an x-ray crystal structure study. The overall structure of A. aeolicus Trm1 is similar to that of archaeal Tr...

  3. A new accurate pill recognition system using imprint information

    Chen, Zhiyuan; Kamata, Sei-ichiro

    2013-12-01

    Great achievements in modern medicine benefit human beings. Also, it has brought about an explosive growth of pharmaceuticals that current in the market. In daily life, pharmaceuticals sometimes confuse people when they are found unlabeled. In this paper, we propose an automatic pill recognition technique to solve this problem. It functions mainly based on the imprint feature of the pills, which is extracted by proposed MSWT (modified stroke width transform) and described by WSC (weighted shape context). Experiments show that our proposed pill recognition method can reach an accurate rate up to 92.03% within top 5 ranks when trying to classify more than 10 thousand query pill images into around 2000 categories.

  4. Novel base-pairing interactions at the tRNA wobble position crucial for accurate reading of the genetic code

    Rozov, Alexey; Demeshkina, Natalia; Khusainov, Iskander; Westhof, Eric; Yusupov, Marat; Yusupova, Gulnara

    2016-01-01

    Posttranscriptional modifications at the wobble position of transfer RNAs play a substantial role in deciphering the degenerate genetic code on the ribosome. The number and variety of modifications suggest different mechanisms of action during messenger RNA decoding, of which only a few were described so far. Here, on the basis of several 70S ribosome complex X-ray structures, we demonstrate how Escherichia coli tRNALysUUU with hypermodified 5-methylaminomethyl-2-thiouridine (mnm5s2U) at the wobble position discriminates between cognate codons AAA and AAG, and near-cognate stop codon UAA or isoleucine codon AUA, with which it forms pyrimidine-pyrimidine mismatches. We show that mnm5s2U forms an unusual pair with guanosine at the wobble position that expands general knowledge on the degeneracy of the genetic code and specifies a powerful role of tRNA modifications in translation. Our models consolidate the translational fidelity mechanism proposed previously where the steric complementarity and shape acceptance dominate the decoding mechanism.

  5. Biosynthesis and functions of sulfur modifications in tRNA

    Shigi, Naoki

    2014-01-01

    Sulfur is an essential element for a variety of cellular constituents in all living organisms. In tRNA molecules, there are many sulfur-containing nucleosides, such as the derivatives of 2-thiouridine (s2U), 4-thiouridine (s4U), 2-thiocytidine (s2C), and 2-methylthioadenosine (ms2A). Earlier studies established the functions of these modifications for accurate and efficient translation, including proper recognition of the codons in mRNA or stabilization of tRNA structure. In many cases, the b...

  6. Proposed Enhanced Object Recognition Approach for Accurate Bionic Eyes

    Mohammad Shkoukani; Hesham Abusaimeh; Rawan Abu Lial; Mays Khawaldeh

    2012-01-01

    AI has played a huge role in image formation and recognition, but all built on the supervised and unsupervised learning algorithms the learning agents follow. Neural networks have also a role in bionic eyes integration but it is not discussed thoroughly in this paper. The chip to be implanted, which is a robotic device that applies methods developed in machine learning, consists of large scale algorithms for feature learning to construct classifiers for object detection and recognition, to in...

  7. Proposed Enhanced Object Recognition Approach for Accurate Bionic Eyes

    Mohammad Shkoukani

    2012-07-01

    Full Text Available AI has played a huge role in image formation and recognition, but all built on the supervised and unsupervised learning algorithms the learning agents follow. Neural networks have also a role in bionic eyes integration but it is not discussed thoroughly in this paper. The chip to be implanted, which is a robotic device that applies methods developed in machine learning, consists of large scale algorithms for feature learning to construct classifiers for object detection and recognition, to input in the chip system. The challenge however is in identifying a complex image, which may require combined processes of learning features algorithms. In this paper an experimented approaches are stated for individual case of concentration of objects to obtain a high recognition outcome. Each approach may influence one angle, and a suggested non-experimented approach may give a better visual aid for bionic recognition and identification, using more learning and testing methods. The paper discusses the different approached of kernel and convolutional methods to classify objects, in addition to a proposed model to extract a maximized optimization of object formation and recognition. The proposed model combines variety of algorithms that have been experimented in differed related works and uses different learning approaches to handle large datasets in training.

  8. Accurate recognition of large number of hand gestures

    Shamaie, Atid; Sutherland, Alistair

    2003-01-01

    A hierarchical gesture recognition algorithm is introduced to recognise a large number of gestures. Three stages of the proposed algorithm are based on a new hand tracking technique to recognise the actual beginning of a gesture using a Kalman filtering process, hidden Markov models and graph matching. Processing time is important in working with large databases. Therefore, special cares are taken to deal with the large number of gestures, which are partially similar.

  9. Neural Network Based Accurate Biometric Recognition and Identification of Human Iris Patterns

    M. Gopikrishnan; T.Santhanam

    2010-01-01

    Problem statement: A biometric system provides automatic identification of an individual based on a unique feature or characteristic possessed by the individual. Iris recognition is regarded as the most reliable and accurate biometric identification system available. Approach: Most commercial iris recognition systems use patented algorithms developed by Daugman and these algorithms are able to produce perfect recognition rates. However, published results have usually been produced under favor...

  10. Anticodon recognition in evolution: switching tRNA specificity of an aminoacyl-tRNA synthetase by site-directed peptide transplantation.

    Brevet, Annie; Chen, Josiane; Commans, Stéphane; Lazennec, Christine; Blanquet, Sylvain; Plateau, Pierre

    2003-08-15

    The highly conserved aspartyl-, asparaginyl-, and lysyl-tRNA synthetases compose one subclass of aminoacyl-tRNA synthetases, called IIb. The three enzymes possess an OB-folded extension at their N terminus. The function of this extension is to specifically recognize the anticodon triplet of the tRNA. Three-dimensional models of bacterial aspartyl- and lysyl-tRNA synthetases complexed to tRNA indicate that a rigid scaffold of amino acid residues along the five beta-strands of the OB-fold accommodates the base U at the center of the anticodon. The binding of the adjacent anticodon bases occurs through interactions with a flexible loop joining strands 4 and 5 (L45). As a result, a switching of the specificity of lysyl-tRNA synthetase from tRNALys (anticodon UUU) toward tRNAAsp (GUC) could be attempted by transplanting the small loop L45 of aspartyl-tRNA synthetase inside lysyl-tRNA synthetase. Upon this transplantation, lysyl-tRNA synthetase loses its capacity to aminoacylate tRNALys. In exchange, the chimeric enzyme acquires the capacity to charge tRNAAsp with lysine. Upon giving the tRNAAsp substrate the discriminator base of tRNALys, the specificity shift is improved. The change of specificity was also established in vivo. Indeed, the transplanted lysyl-tRNA synthetase succeeds in suppressing a missense Lys --> Asp mutation inserted into the beta-lactamase gene. These results functionally establish that sequence variation in a small peptide region of subclass IIb aminoacyl-tRNA synthetases contributes to specification of nucleic acid recognition. Because this peptide element is not part of the core catalytic structure, it may have evolved independently of the active sites of these synthetases. PMID:12766171

  11. Neural Network Based Accurate Biometric Recognition and Identification of Human Iris Patterns

    M. Gopikrishnan

    2010-01-01

    Full Text Available Problem statement: A biometric system provides automatic identification of an individual based on a unique feature or characteristic possessed by the individual. Iris recognition is regarded as the most reliable and accurate biometric identification system available. Approach: Most commercial iris recognition systems use patented algorithms developed by Daugman and these algorithms are able to produce perfect recognition rates. However, published results have usually been produced under favorable conditions and there have been no independent trials of the technology. Results: In this study after providing brief picture on development of various techniques for iris recognition, hamming distance coupled with neural network based iris recognition techniques were discussed. Perfect recognition on a set of 150 eye images has been achieved through this approach. Further, Tests on another set of 801 images resulted in false accept and false reject rates of 0.0005 and 0.187% respectively, providing the reliability and accuracy of the biometric technology. Conclusion/Recommendations: This study provided results of iris recognition performed applying Hamming distance, Feed forward back propagation, Cascade forward back propagation, Elman forward back propagation and perceptron. It has been established that the method suggested applying perceptron provides the best accuracy in respect of iris recognition with no major additional computational complexity.

  12. Biosynthesis and functions of sulfur modifications in tRNA

    Naoki eShigi

    2014-04-01

    Full Text Available Sulfur is an essential element for a variety of cellular constituents in all living organisms. In tRNA molecules, there are many sulfur-containing nucleosides, such as the derivatives of 2‑thiouridine (s2U, 4-thiouridine (s4U, 2-thiocytidine (s2C, and 2-methylthioadenosine (ms2A. Earlier studies established the functions of these modifications for accurate and efficient translation, including proper recognition of the codons in mRNA or stabilization of tRNA structure. In many cases, the biosynthesis of these sulfur modifications starts with cysteine desulfurases, which catalyze the generation of persulfide (an activated form of sulfur from cysteine. Many sulfur-carrier proteins are responsible for delivering this activated sulfur to each biosynthesis pathway. Finally, specific modification enzymes activate target tRNAs and then incorporate sulfur atoms. Intriguingly, the biosynthesis of 2-thiouridine in all domains of life is functionally and evolutionarily related to the ubiquitin-like post-translational modification system of cellular proteins in eukaryotes. This review summarizes the recent characterization of the biosynthesis of sulfur modifications in tRNA and the novel roles of this modification in cellular functions in various model organisms, with a special emphasis on 2-thiouridine derivatives. Each biosynthesis pathway of sulfur-containing molecules is mutually modulated via sulfur trafficking, and 2-thiouridine and codon usage bias have been proposed to control the translation of specific genes.

  13. Biosynthesis and functions of sulfur modifications in tRNA.

    Shigi, Naoki

    2014-01-01

    Sulfur is an essential element for a variety of cellular constituents in all living organisms. In tRNA molecules, there are many sulfur-containing nucleosides, such as the derivatives of 2-thiouridine (s(2)U), 4-thiouridine (s(4)U), 2-thiocytidine (s(2)C), and 2-methylthioadenosine (ms(2)A). Earlier studies established the functions of these modifications for accurate and efficient translation, including proper recognition of the codons in mRNA or stabilization of tRNA structure. In many cases, the biosynthesis of these sulfur modifications starts with cysteine desulfurases, which catalyze the generation of persulfide (an activated form of sulfur) from cysteine. Many sulfur-carrier proteins are responsible for delivering this activated sulfur to each biosynthesis pathway. Finally, specific "modification enzymes" activate target tRNAs and then incorporate sulfur atoms. Intriguingly, the biosynthesis of 2-thiouridine in all domains of life is functionally and evolutionarily related to the ubiquitin-like post-translational modification system of cellular proteins in eukaryotes. This review summarizes the recent characterization of the biosynthesis of sulfur modifications in tRNA and the novel roles of this modification in cellular functions in various model organisms, with a special emphasis on 2-thiouridine derivatives. Each biosynthesis pathway of sulfur-containing molecules is mutually modulated via sulfur trafficking, and 2-thiouridine and codon usage bias have been proposed to control the translation of specific genes. PMID:24765101

  14. Accurate Iris Segmentation Method for Non-Cooperative Iris Recognition System

    Abdulsamad E. Yahya

    2010-01-01

    Full Text Available Problem statement: Iris segmentation is one of the most important steps in iris recognition system and determines the accuracy of matching. Most segmentation methods in the literature assumed that the inner and outer boundaries of the iris were circular. Hence, they focus on determining model parameters that best fit these hypotheses. This is a source of error, since the iris boundaries were not exactly circles. Approach: In this study we proposed an accurate iris segmentation method that employs Chan-Vese active contour method to extract the iris from his surrounding structures. Results: The proposed method was implemented and tested on the challenging UBIRIS database the results indicated the efficacy of the proposed method. Conclusion: The experimental results showed that the proposed method localized the iris area probably even when the eyelids occlude same part of iris.

  15. Fast and Accurate Recurrent Neural Network Acoustic Models for Speech Recognition

    SAK, Haşim; Senior, Andrew; Rao, Kanishka; Beaufays, Françoise

    2015-01-01

    We have recently shown that deep Long Short-Term Memory (LSTM) recurrent neural networks (RNNs) outperform feed forward deep neural networks (DNNs) as acoustic models for speech recognition. More recently, we have shown that the performance of sequence trained context dependent (CD) hidden Markov model (HMM) acoustic models using such LSTM RNNs can be equaled by sequence trained phone models initialized with connectionist temporal classification (CTC). In this paper, we present techniques tha...

  16. Network of tRNA Gene Sequences

    WEI Fang-ping; LI Sheng; MA Hong-ru

    2008-01-01

    A network of 3719 tRNA gene sequences was constructed using simplest alignment. Its topology, degree distribution and clustering coefficient were studied. The behaviors of the network shift from fluctuated distribution to scale-free distribution when the similarity degree of the tRNA gene sequences increases. The tRNA gene sequences with the same anticodon identity are more self-organized than those with different anticodon identities and form local clusters in the network. Some vertices of the local cluster have a high connection with other local clusters, and the probable reason was given. Moreover, a network constructed by the same number of random tRNA sequences was used to make comparisons. The relationships between the properties of the tRNA similarity network and the characters of tRNA evolutionary history were discussed.

  17. tRNA binding properties of eukaryotic translation initiation factor 2 from Encephalitozoon cuniculi.

    Naveau, Marie; Lazennec-Schurdevin, Christine; Panvert, Michel; Mechulam, Yves; Schmitt, Emmanuelle

    2010-10-12

    A critical consequence of the initiation of translation is the setting of the reading frame for mRNA decoding. In eukaryotic and archaeal cells, heterotrimeric initiation factor e/aIF2, in its GTP form, specifically binds Met-tRNA(i)(Met) throughout the translation initiation process. After start codon recognition, the factor, in its GDP-bound form, loses affinity for Met-tRNA(i)(Met) and eventually dissociates from the initiation complex. The role of each aIF2 subunit in tRNA binding has been extensively studied in archaeal systems. The isolated archaeal γ subunit is able to bind tRNA, but the α subunit is required for strong binding. Until now, difficulties during purification have hampered the study of the role of each of the three subunits of eukaryotic eIF2 in specific binding of the initiator tRNA. Here, we have produced the three subunits of eIF2 from Encephalitozoon cuniculi, isolated or assembled into heterodimers or into the full heterotrimer. Using assays following protection of Met-tRNA(i)(Met) against deacylation, we show that the eukaryotic γ subunit is able to bind by itself the initiator tRNA. However, the two peripheral α and β subunits are required for strong binding and contribute equally to tRNA binding affinity. The core domains of α and β probably act indirectly by stabilizing the tRNA binding site on the γ subunit. These results, together with those previously obtained with archaeal aIF2 and yeast eIF2, show species-specific distributions of the roles of the peripheral subunits of e/aIF2 in tRNA binding. PMID:20822097

  18. Amino acid modifications on tRNA

    Jing Yuan; Kelly Sheppard; Dieter S(o)ll

    2008-01-01

    The accurate formation of cognate aminoacyl-transfer RNAs (aa-tRNAs) is essential for the fidelity of translation.Most amino acids are esterified onto their cognate tRNA isoacceptors directly by aa.tRNA synthetases.However,in the case of four amino acids (Gin,Asn,Cys and Sec),aminoacyl-tRNAs are made through indirect pathways in many organisms across all three domains of life.The process begins with the charging ofnoncognate amino acids to tRNAs by a specialized synthetase in the case of Cys-tRNAcys formation or by synthetases with relaxed specificity,such as the non-discriminating glutamyl-tRNA,non-discriminating aspartyl-tRNA and seryl-tRNA synthetases.The resulting misacylated tRNAs are then converted to cognate pairs through transformation of the amino acids on the tRNA,which is catalyzed by a group of tRNA-dependent modifying enzymes,such as tRNA-dependent amidotransferases,Sep-tRNA:Cys-tRNA synthase,O-phosphoseryi-tRNA kinase and Sep-tRNA:Sec-tRNA synthase.The majority of these indirect pathways are widely spread in all domains of life and thought to be part of the evolutionary process.

  19. Disrupted tRNA Genes and tRNA Fragments: A Perspective on tRNA Gene Evolution

    Akio Kanai

    2015-01-01

    Full Text Available Transfer RNAs (tRNAs are small non-coding RNAs with lengths of approximately 70–100 nt. They are directly involved in protein synthesis by carrying amino acids to the ribosome. In this sense, tRNAs are key molecules that connect the RNA world and the protein world. Thus, study of the evolution of tRNA molecules may reveal the processes that led to the establishment of the central dogma: genetic information flows from DNA to RNA to protein. Thanks to the development of DNA sequencers in this century, we have determined a huge number of nucleotide sequences from complete genomes as well as from transcriptomes in many species. Recent analyses of these large data sets have shown that particular tRNA genes, especially in Archaea, are disrupted in unique ways: some tRNA genes contain multiple introns and some are split genes. Even tRNA molecules themselves are fragmented post-transcriptionally in many species. These fragmented small RNAs are known as tRNA-derived fragments (tRFs. In this review, I summarize the progress of research into the disrupted tRNA genes and the tRFs, and propose a possible model for the molecular evolution of tRNAs based on the concept of the combination of fragmented tRNA halves.

  20. Disrupted tRNA Genes and tRNA Fragments: A Perspective on tRNA Gene Evolution.

    Kanai, Akio

    2015-01-01

    Transfer RNAs (tRNAs) are small non-coding RNAs with lengths of approximately 70-100 nt. They are directly involved in protein synthesis by carrying amino acids to the ribosome. In this sense, tRNAs are key molecules that connect the RNA world and the protein world. Thus, study of the evolution of tRNA molecules may reveal the processes that led to the establishment of the central dogma: genetic information flows from DNA to RNA to protein. Thanks to the development of DNA sequencers in this century, we have determined a huge number of nucleotide sequences from complete genomes as well as from transcriptomes in many species. Recent analyses of these large data sets have shown that particular tRNA genes, especially in Archaea, are disrupted in unique ways: some tRNA genes contain multiple introns and some are split genes. Even tRNA molecules themselves are fragmented post-transcriptionally in many species. These fragmented small RNAs are known as tRNA-derived fragments (tRFs). In this review, I summarize the progress of research into the disrupted tRNA genes and the tRFs, and propose a possible model for the molecular evolution of tRNAs based on the concept of the combination of fragmented tRNA halves. PMID:25629271

  1. Hyperaccurate and error-prone ribosomes exploit distinct mechanisms during tRNA selection

    Zaher, Hani S.; Green, Rachel

    2010-01-01

    Escherichia coli strains displaying hyper-accurate (restrictive) and ribosomal ambiguity (ram) phenotypes have long been associated with alterations in rpsL and rpsD/rpsE, respectively. Crystallographic evidence shows the ribosomal proteins S12 and S4/S5 (corresponding to these genes) to be located in separate regions of the small ribosomal subunit that are important for domain-closure thought to take place during tRNA selection. Mechanistically, the process of tRNA selection is separated int...

  2. Nucleotide sequence of a spinach chloroplast valine tRNA.

    Sprouse, H M; Kashdan, M; Otis, L; Dudock, B

    1981-01-01

    The nucleotide sequence of a spinach chloroplast valine tRNA (sp. chl. tRNA Val) has been determined. This tRNA shows essentially equal homology to prokaryotic valine tRNAs (58-65% homology) and to the mitochondrial valine tRNAs of lower eukaryotes (yeast and N. crassa, 61-62% homology). Sp. chl. tRNA Val shows distinctly lower homology to mouse mitochondrial valine tRNA (53% homology) and to eukaryotic cytoplasmic valine tRNAs (47-53% homology). Sp. chl. tRNA Val, like all other chloroplast ...

  3. tRNA creation by hairpin duplication.

    Widmann, Jeremy; Di Giulio, Massimo; Yarus, Michael; Knight, Rob

    2005-10-01

    Many studies have suggested that the modern cloverleaf structure of tRNA may have arisen through duplication of a primordial hairpin, but the timing of this duplication event has been unclear. Here we measure the level of sequence identity between the two halves of each of a large sample of tRNAs and compare this level to that of chimeric tRNAs constructed either within or between groups defined by phylogeny and/or specificity. We find that actual tRNAs have significantly more matches between the two halves than do random sequences that can form the tRNA structure, but there is no difference in the average level of matching between the two halves of an individual tRNA and the average level of matching between the two halves of the chimeric tRNAs in any of the sets we constructed. These results support the hypothesis that the modern tRNA cloverleaf arose from a single hairpin duplication prior to the divergence of modern tRNA specificities and the three domains of life. PMID:16155749

  4. tRNA Biology in Mitochondria

    Thalia Salinas-Giegé

    2015-02-01

    Full Text Available Mitochondria are the powerhouses of eukaryotic cells. They are considered as semi-autonomous because they have retained genomes inherited from their prokaryotic ancestor and host fully functional gene expression machineries. These organelles have attracted considerable attention because they combine bacterial-like traits with novel features that evolved in the host cell. Among them, mitochondria use many specific pathways to obtain complete and functional sets of tRNAs as required for translation. In some instances, tRNA genes have been partially or entirely transferred to the nucleus and mitochondria require precise import systems to attain their pool of tRNAs. Still, tRNA genes have also often been maintained in mitochondria. Their genetic arrangement is more diverse than previously envisaged. The expression and maturation of mitochondrial tRNAs often use specific enzymes that evolved during eukaryote history. For instance many mitochondria use a eukaryote-specific RNase P enzyme devoid of RNA. The structure itself of mitochondrial encoded tRNAs is also very diverse, as e.g., in Metazoan, where tRNAs often show non canonical or truncated structures. As a result, the translational machinery in mitochondria evolved adapted strategies to accommodate the peculiarities of these tRNAs, in particular simplified identity rules for their aminoacylation. Here, we review the specific features of tRNA biology in mitochondria from model species representing the major eukaryotic groups, with an emphasis on recent research on tRNA import, maturation and aminoacylation.

  5. Evaluation of lexicon size variations on a verification and rejection system based on SVM, for accurate and robust recognition of handwritten words

    Ricquebourg, Yann; Coüasnon, Bertrand; Guichard, Laurent

    2013-01-01

    The transcription of handwritten words remains a still challenging and difficult task. When processing full pages, approaches are limited by the trade-off between automatic recognition errors and the tedious aspect of human user verification. In this article, we present our investigations to improve the capabilities of an automatic recognizer, so as to be able to reject unknown words (not to take wrong decisions) while correctly rejecting (i.e. to recognize as much as possible from the lexicon of known words). This is the active research topic of developing a verification system that optimize the trade-off between performance and reliability. To minimize the recognition errors, a verification system is usually used to accept or reject the hypotheses produced by an existing recognition system. Thus, we re-use our novel verification architecture1 here: the recognition hypotheses are re-scored by a set of support vector machines, and validated by a verification mechanism based on multiple rejection thresholds. In order to tune these (class-dependent) rejection thresholds, an algorithm based on dynamic programming has been proposed which focus on maximizing the recognition rate for a given error rate. Experiments have been carried out on the RIMES database in three steps. The first two showed that this approach results in a performance superior or equal to other state-of-the-art rejection methods. We focus here on the third one showing that this verification system also greatly improves results of keywords extraction in a set of handwritten words, with a strong robustness to lexicon size variations (21 lexicons have been tested from 167 entries up to 5,600 entries) which is particularly relevant to our application context cooperating with humans, and only made possible thanks to the rejection ability of this proposed system. The proposed verification system, compared to a HMM with simple rejection, improves on average the recognition rate by 57% (resp. 33% and 21%) for

  6. Kinetic Analysis of tRNA Methylfransferases

    Hou, Ya-Ming; Masuda, Isao

    2016-01-01

    Transfer RNA (tRNA) molecules contain many chemical modifications that are introduced after transcription. A major form of these modifications is methyl transfer to bases and backbone groups, using S-adenosyl methionine (AdoMet) as the methyl donor. Each methylation confers a specific advantage to tRNA in structure or in function. A remarkable methylation is to the G37 base on the 3' side of the anticodon to generate m1G37-tRNA, which suppresses frameshift errors during protein synthesis and is therefore essential for cell growth in all three domains of life. This methylation is catalyzed by TrmD in bacteria and by Trm5 in eukaryotes and archaea. Although TrmD and Trm5 catalyze the same methylation reaction, kinetic analysis reveal that these two enzymes are unrelated to each other and are distinct in their reaction mechanism. This chapter summarizes the kinetic assays that are used to reveal the distinction between TrmD and Trm5. Three types of assays are described, the steady-state, the pre-steady-state, and the single turnover assays, which collectively provide the basis for mechanistic investigation of AdoMet-dependent methyl transfer reactions. PMID:26253967

  7. RNA versatility governs tRNA function: Why tRNA flexibility is essential beyond the translation cycle.

    Kuhn, Claus-D

    2016-05-01

    tRNAs undergo multiple conformational changes during the translation cycle that are required for tRNA translocation and proper communication between the ribosome and translation factors. Recent structural data on how destabilized tRNAs utilize the CCA-adding enzyme to proofread themselves put a spotlight on tRNA flexibility beyond the translation cycle. In analogy to tRNA surveillance, this review finds that other processes also exploit versatile tRNA folding to achieve, amongst others, specific aminoacylation, translational regulation by riboswitches or a block of bacterial translation. tRNA flexibility is thereby not restricted to the hinges utilized during translation. In contrast, the flexibility of tRNA is distributed all over its L-shape and is actively exploited by the tRNA-interacting partners to discriminate one tRNA from another. Since the majority of tRNA modifications also modulate tRNA flexibility it seems that cells devote enormous resources to tightly sense and regulate tRNA structure. This is likely required for error-free protein synthesis. PMID:26990636

  8. Structural Insights into tRNA Dynamics on the Ribosome

    Xabier Agirrezabala

    2015-04-01

    Full Text Available High-resolution structures at different stages, as well as biochemical, single molecule and computational approaches have highlighted the elasticity of tRNA molecules when bound to the ribosome. It is well acknowledged that the inherent structural flexibility of the tRNA lies at the heart of the protein synthesis process. Here, we review the recent advances and describe considerations that the conformational changes of the tRNA molecules offer about the mechanisms grounded in translation.

  9. Structural Insights into tRNA Dynamics on the Ribosome.

    Agirrezabala, Xabier; Valle, Mikel

    2015-01-01

    High-resolution structures at different stages, as well as biochemical, single molecule and computational approaches have highlighted the elasticity of tRNA molecules when bound to the ribosome. It is well acknowledged that the inherent structural flexibility of the tRNA lies at the heart of the protein synthesis process. Here, we review the recent advances and describe considerations that the conformational changes of the tRNA molecules offer about the mechanisms grounded in translation. PMID:25941930

  10. Structural Insights into tRNA Dynamics on the Ribosome

    Xabier Agirrezabala; Mikel Valle

    2015-01-01

    High-resolution structures at different stages, as well as biochemical, single molecule and computational approaches have highlighted the elasticity of tRNA molecules when bound to the ribosome. It is well acknowledged that the inherent structural flexibility of the tRNA lies at the heart of the protein synthesis process. Here, we review the recent advances and describe considerations that the conformational changes of the tRNA molecules offer about the mechanisms grounded in translation.

  11. Mitochondrial tRNA gene translocations in highly eusocial bees

    Daniela Silvestre; Maria Cristina Arias

    2006-01-01

    Mitochondrial gene rearrangement events, especially involving tRNA genes, have been described more frequently as more complete mitochondrial genome sequences are becoming available. In the present work, we analyzed mitochondrial tRNA gene rearrangements between two bee species belonging to the tribes Apini and Meliponini within the "corbiculate Apidae". Eleven tRNA genes are in different genome positions or strands. The molecular events responsible for each translocation are explained. Consid...

  12. Fingerprint recognition

    Diefenderfer, Graig T.

    2006-01-01

    The use of biometrics is an evolving component in today's society. Fingerprint recognition continues to be one of the most widely used biometric systems. This thesis explores the various steps present in a fingerprint recognition system. The study develops a working algorithm to extract fingerprint minutiae from an input fingerprint image. This stage incorporates a variety of image pre-processing steps necessary for accurate minutiae extraction and includes two different methods of ridge thin...

  13. Nucleolar Clustering of Dispersed tRNA Genes

    Thompson, Martin; Haeusler, Rebecca A.; Good, Paul D.; Engelke, David R.

    2003-01-01

    Early transfer RNA (tRNA) processing events in Saccharomyces cerevisiae are coordinated in the nucleolus, the site normally associated with ribosome biosynthesis. To test whether spatial organization of the tRNA pathway begins with nucleolar clustering of the genes, we have probed the subnuclear location of five different tRNA gene families. The results show that tRNA genes, though dispersed in the linear genome, colocalize with 5S ribosomal DNA and U14 small nucleolar RNA at the nucleolus. N...

  14. Iris Recognition Technique

    XIE Mei

    2006-01-01

    The demand on security is increasing greatly in these years and biometric recognition gradually becomes a hot field of research. Iris recognition is a new branch of biometric recognition, which is regarded as the most stable, safe and accurate biometric recognition method. In these years, much progress in this field has been made by scholars and experts of different countries. In this paper, some successful iris recognition methods are listed and their performance are compared. Furthermore, the existing problems and challenges are discussed.

  15. HUMAN MITOCHONDRIAL tRNA MUTATIONS IN MATERNALLY INHERITED DEAFNESS

    ZHENG Jing; GONG Sha-sha; TANG Xiao-wen; ZHU Yi; GUAN Min-xin

    2013-01-01

    Mutations in mitochondrial tRNA genes have been shown to be associated with maternally inherited syn-dromic and non-syndromic deafness. Among those, mutations such as tRNALeu(UUR) 3243A>G associated with syndromic deafness are often present in heteroplasmy, and the non-syndromic deafness-associated tRNA mu-tations including tRNASer(UCN) 7445A>G are often in homoplasmy or in high levels of heteroplasmy. These tRNA mutations are the primary factors underlying the development of hearing loss. However, other tRNA mutations such as tRNAThr 15927G>A and tRNASer(UCN) 7444G>A are insufficient to produce a deafness phe-notype, but always act in synergy with the primary mitochondrial DNA mutations, and can modulate their phenotypic manifestation. These tRNA mutations may alter the structure and function of the corresponding mitochondrial tRNAs and cause failures in tRNAs metabolism. Thereby, the impairment of mitochondrial protein synthesis and subsequent defects in respiration caused by these tRNA mutations, results in mitochon-drial dysfunctions and eventually leads to the development of hearing loss. Here, we summarized the deaf-ness-associated mitochondrial tRNA mutations and discussed the pathophysiology of these mitochondrial tRNA mutations, and we hope these data will provide a foundation for the early diagnosis, management, and treatment of maternally inherited deafness.

  16. Nucleotide sequence of a human tRNA gene heterocluster

    Leucine tRNA from bovine liver was used as a hybridization probe to screen a human gene library harbored in Charon-4A of bacteriophage lambda. The human DNA inserts from plaque-pure clones were characterized by restriction endonuclease mapping and Southern hybridization techniques, using both [3'-32P]-labeled bovine liver leucine tRNA and total tRNA as hybridization probes. An 8-kb Hind III fragment of one of these γ-clones was subcloned into the Hind III site of pBR322. Subsequent fine restriction mapping and DNA sequence analysis of this plasmid DNA indicated the presence of four tRNA genes within the 8-kb DNA fragment. A leucine tRNA gene with an anticodon of AAG and a proline tRNA gene with an anticodon of AGG are in a 1.6-kb subfragment. A threonine tRNA gene with an anticodon of UGU and an as yet unidentified tRNA gene are located in a 1.1-kb subfragment. These two different subfragments are separated by 2.8 kb. The coding regions of the three sequenced genes contain characteristic internal split promoter sequences and do not have intervening sequences. The 3'-flanking region of these three genes have typical RNA polymerase III termination sites of at least four consecutive T residues

  17. Recognition of tRNAs with a long variable arm by aminoacyl-tRNA synthetases

    Tukalo M. A.

    2013-07-01

    Full Text Available In prokaryotic cells three tRNA species, tRNASer, tRNALeu and tRNATyr, possess a long variable arm of 11–20 nucleotides (type 2 tRNA rather than usual 4 or 5 nucleotides (type 1 tRNA. In this review we have summarized the results of our research on the structural basis for recognition and discrimination of type 2 tRNAs by Thermus thermophilus seryl-, tyrosyl- and leucyl-tRNA synthetases (SerRS, TyrRS and LeuRS obtained by X-ray crystallography and chemical probing tRNA in solution. Crystal structures are now known of all three aminoacyl-tRNA synthetases complexed with type 2 tRNAs and the different modes of tRNA recognition represented by these structures will be discussed. In particular, emphasis will be given to the results on recognition of characteristic shape of type 2 tRNAs by cognate synthetases. In tRNASer, tRNATyr and tRNALeu the orientation of the long variable arm with respect to the body of the tRNA is different and is controlled by different packing of the core. In the case of SerRS the N-terminal domain and in the case of TyrRS, the C-terminal domain, bind to the characteristic long variable arm of the cognate RNA, thus recognizing the unique shape of the tRNA. The core of T. thermophilus tRNALeu has several layers of unusual base-pairs, which are revealed by the crystal structure of tRNALeu complexed with T. thermophilus LeuRS and by probing a ligand-free tRNA by specific chemical reagents in solution. In the crystal structure of the LeuRS-tRNALeu complex the unique D-stem structure is recognized by the C-terminal domain of LeuRS and these data are in good agreement with those obtained in solution. LeuRS has canonical class I mode of tRNA recognition, approaching the tRNA acceptor stem from the D-stem and minor groove of the acceptor stem side. SerRS also has canonical class II mode of tRNA recognition and approaches tRNASer from opposite, variable stem and major groove of acceptor stem site. And finally, TyrRS in strong

  18. Molecular basis of dihydrouridine formation on tRNA

    Yu, Futao; Tanaka, Yoshikazu; Yamashita, Keitaro; Suzuki, Takeo; Nakamura, Akiyoshi; Hirano, Nagisa; Suzuki, Tsutomu; Yao, Min; Tanaka, Isao

    2011-01-01

    Dihydrouridine (D) is a highly conserved modified base found in tRNAs from all domains of life. Dihydrouridine synthase (Dus) catalyzes the D formation of tRNA through reduction of uracil base with flavin mononucleotide (FMN) as a cofactor. Here, we report the crystal structures of Thermus thermophilus Dus (TthDus), which is responsible for D formation at positions 20 and 20a, in complex with tRNA and with a short fragment of tRNA (D-loop). Dus interacts extensively with the D-arm and recogni...

  19. A Fast, Accurate and Easy to Implement Method for Pose Recognition of an Intramedullary Nail using a Tracked C-arm

    Esfandiari, H.; Amiri, S.; Lichti, D. D.; Anglin, C.

    2014-06-01

    A C-arm is a mobile X-ray device that is frequently used during orthopaedic surgeries. It consists of a semi-circular, arc-shaped arm that holds an X-ray transmitter at one end and an X-ray detector at the other. Intramedullary nail (IM nail) fixation is a popular orthopaedic surgery in which a metallic rod is placed into the patient's fractured bone (femur or tibia) and fixed using metal screws. The main challenge of IM-nail fixation surgery is to achieve the X-ray shot in which the distal holes of the IM nail appear as circles (desired view) so that the surgeon can easily insert the screws. Although C-arm X-ray devices are routinely used in IM-nail fixation surgeries, the surgeons or radiation technologists (rad-techs) usually use it in a trial-and-error manner. This method raises both radiation exposure and surgery time. In this study, we have designed and developed an IM-nail distal locking navigation technique that leads to more accurate and faster screw placement with a lower radiation dose and a minimum number of added steps to the operation to make it more accepted within the orthopaedic community. The specific purpose of this study was to develop and validate an automated technique for identifying the current pose of the IM nail relative to the C-arm. An accuracy assessment was performed to test the reliability of the navigation results. Translational accuracy was demonstrated to be better than 1 mm, roll and pitch rotations better than 2° and yaw rotational accuracy better than 2-5° depending on the separate angle. Computation time was less than 3.5 seconds.

  20. tRNA properties help shape codon pair preferences in open reading frames

    Buchan, J. Ross; Aucott, Lorna S; Stansfield, Ian

    2006-01-01

    Translation elongation is an accurate and rapid process, dependent upon efficient juxtaposition of tRNAs in the ribosomal A- and P-sites. Here, we sought evidence of A- and P-site tRNA interaction by examining bias in codon pair choice within open reading frames from a range of genomes. Three distinct and marked effects were revealed once codon and dipeptide biases had been subtracted. First, in the majority of genomes, codon pair preference is primarily determined by a tetranucleotide combin...

  1. Identity determinants of E. coli tryptophan tRNA.

    Himeno, H; T. Hasegawa; Asahara, H; Tamura, K.; Shimizu, M

    1991-01-01

    The first base pair of the acceptor stem A1-U72 and the discriminator base G73, as well as the anticodon nucleotides, characterize the tryptophan tRNA in E. coli. To determine the contribution of these nucleotides to the tryptophan acceptor activity, various transcripts of E. coli tryptophan tRNA mutants were constructed. Substitutions of the discriminator base G73, which is conserved within prokaryotic tryptophan tRNAs, impaired aminoacylation with tryptophan. Substitutions of other purine-p...

  2. Origins and Early Evolution of the tRNA Molecule

    Koji Tamura

    2015-12-01

    Full Text Available Modern transfer RNAs (tRNAs are composed of ~76 nucleotides and play an important role as “adaptor” molecules that mediate the translation of information from messenger RNAs (mRNAs. Many studies suggest that the contemporary full-length tRNA was formed by the ligation of half-sized hairpin-like RNAs. A minihelix (a coaxial stack of the acceptor stem on the T-stem of tRNA can function both in aminoacylation by aminoacyl tRNA synthetases and in peptide bond formation on the ribosome, indicating that it may be a vestige of the ancestral tRNA. The universal CCA-3′ terminus of tRNA is also a typical characteristic of the molecule. “Why CCA?” is the fundamental unanswered question, but several findings give a comprehensive picture of its origin. Here, the origins and early evolution of tRNA are discussed in terms of various perspectives, including nucleotide ligation, chiral selectivity of amino acids, genetic code evolution, and the organization of the ribosomal peptidyl transferase center (PTC. The proto-tRNA molecules may have evolved not only as adaptors but also as contributors to the composition of the ribosome.

  3. Structural Insights into the Polyphyletic Origins of Glycyl tRNA Synthetases*♦

    Valencia-Sánchez, Marco Igor; Rodríguez-Hernández, Annia; Ferreira, Ruben; Santamaría-Suárez, Hugo Aníbal; Arciniega, Marcelino; Dock-Bregeon, Anne-Catherine; Moras, Dino; Beinsteiner, Brice; Brieba, Luis G.; Grøtli, Morten

    2016-01-01

    Glycyl tRNA synthetase (GlyRS) provides a unique case among class II aminoacyl tRNA synthetases, with two clearly widespread types of enzymes: a dimeric (α2) species present in some bacteria, archaea, and eukaryotes; and a heterotetrameric form (α2β2) present in most bacteria. Although the differences between both types of GlyRS at the anticodon binding domain level are evident, the extent and implications of the variations in the catalytic domain have not been described, and it is unclear whether the mechanism of amino acid recognition is also dissimilar. Here, we show that the α-subunit of the α2β2 GlyRS from the bacterium Aquifex aeolicus is able to perform the first step of the aminoacylation reaction, which involves the activation of the amino acid with ATP. The crystal structure of the α-subunit in the complex with an analog of glycyl adenylate at 2.8 Å resolution presents a conformational arrangement that properly positions the cognate amino acid. This work shows that glycine is recognized by a subset of different residues in the two types of GlyRS. A structural and sequence analysis of class II catalytic domains shows that bacterial GlyRS is closely related to alanyl tRNA synthetase, which led us to define a new subclassification of these ancient enzymes and to propose an evolutionary path of α2β2 GlyRS, convergent with α2 GlyRS and divergent from AlaRS, thus providing a possible explanation for the puzzling existence of two proteins sharing the same fold and function but not a common ancestor. PMID:27226617

  4. Structural Insights into the Polyphyletic Origins of Glycyl tRNA Synthetases.

    Valencia-Sánchez, Marco Igor; Rodríguez-Hernández, Annia; Ferreira, Ruben; Santamaría-Suárez, Hugo Aníbal; Arciniega, Marcelino; Dock-Bregeon, Anne-Catherine; Moras, Dino; Beinsteiner, Brice; Mertens, Haydyn; Svergun, Dmitri; Brieba, Luis G; Grøtli, Morten; Torres-Larios, Alfredo

    2016-07-01

    Glycyl tRNA synthetase (GlyRS) provides a unique case among class II aminoacyl tRNA synthetases, with two clearly widespread types of enzymes: a dimeric (α2) species present in some bacteria, archaea, and eukaryotes; and a heterotetrameric form (α2β2) present in most bacteria. Although the differences between both types of GlyRS at the anticodon binding domain level are evident, the extent and implications of the variations in the catalytic domain have not been described, and it is unclear whether the mechanism of amino acid recognition is also dissimilar. Here, we show that the α-subunit of the α2β2 GlyRS from the bacterium Aquifex aeolicus is able to perform the first step of the aminoacylation reaction, which involves the activation of the amino acid with ATP. The crystal structure of the α-subunit in the complex with an analog of glycyl adenylate at 2.8 Å resolution presents a conformational arrangement that properly positions the cognate amino acid. This work shows that glycine is recognized by a subset of different residues in the two types of GlyRS. A structural and sequence analysis of class II catalytic domains shows that bacterial GlyRS is closely related to alanyl tRNA synthetase, which led us to define a new subclassification of these ancient enzymes and to propose an evolutionary path of α2β2 GlyRS, convergent with α2 GlyRS and divergent from AlaRS, thus providing a possible explanation for the puzzling existence of two proteins sharing the same fold and function but not a common ancestor. PMID:27226617

  5. tRNAfeature: An algorithm for tRNA features to identify tRNA genes in DNA sequences.

    Yang, Cheng-Hong; Lin, Yu-Da; Chuang, Li-Yeh

    2016-09-01

    The identification of transfer RNAs (tRNAs) is critical for a detailed understanding of the evolution of biological organisms and viruses. However, some tRNAs are difficult to recognize due to their unusual sub-structures and may result in the detection of the wrong anticodon. Therefore, the detection of unusual sub-structures of tRNA genes remains an important challenge. In this study, we propose a method to identify tRNA genes based on tRNA features. tRNAfeature attempts to refold the sequence with single-stranded regions longer than those found in the canonical and conventional structural models for tRNA. We predicted a set of 53926 archaeal, eubacterial and eukaryotic tRNA genes annotated in tRNADB-CE and scanned the tRNA genes in whole genome sequencing. The results indicate that tRNAfeature is more powerful than other existing methods for identifying tRNAs. PMID:27291467

  6. Mitochondrial tRNA gene translocations in highly eusocial bees

    Daniela Silvestre

    2006-01-01

    Full Text Available Mitochondrial gene rearrangement events, especially involving tRNA genes, have been described more frequently as more complete mitochondrial genome sequences are becoming available. In the present work, we analyzed mitochondrial tRNA gene rearrangements between two bee species belonging to the tribes Apini and Meliponini within the "corbiculate Apidae". Eleven tRNA genes are in different genome positions or strands. The molecular events responsible for each translocation are explained. Considering the high number of rearrangements observed, the data presented here contradict the general rule of high gene order conservation among closely related organisms, and also represent a powerful molecular tool to help solve questions about phylogeny and evolution in bees.

  7. Interaction of tRNA with MEK2 in pancreatic cancer cells

    Xiaoyun Wang; Christina R. Chow; Kazumi Ebine; Jiyoung Lee; Marsha R Rosner; Tao Pan; Munshi, Hidayatullah G.

    2016-01-01

    Although the translational function of tRNA has long been established, extra translational functions of tRNA are still being discovered. We previously developed a computational method to systematically predict new tRNA-protein complexes and experimentally validated six candidate proteins, including the mitogen-activated protein kinase kinase 2 (MEK2), that interact with tRNA in HEK293T cells. However, consequences of the interaction between tRNA and these proteins remain to be elucidated. Her...

  8. Recognition of tRNALeu by Aquifex aeolicus leucyl-tRNA synthetase during the aminoacylation and editing steps

    Yao, Peng; Zhu, Bin; Jaeger, Sophie; Eriani, Gilbert; Wang, En-Duo

    2008-01-01

    Recognition of tRNA by the cognate aminoacyl-tRNA synthetase during translation is crucial to ensure the correct expression of the genetic code. To understand tRNALeu recognition sets and their evolution, the recognition of tRNALeu by the leucyl-tRNA synthetase (LeuRS) from the primitive hyperthermophilic bacterium Aquifex aeolicus was studied by RNA probing and mutagenesis. The results show that the base A73; the core structure of tRNA formed by the tertiary interactions U8–A14, G18–U55 and ...

  9. Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase.

    Yamashita, Seisuke; Takeshita, Daijiro; Tomita, Kozo

    2014-02-01

    The 3'-terminal CCA (CCA-3' at positions 74-76) of tRNA is synthesized by CCA-adding enzyme using CTP and ATP as substrates, without a nucleic acid template. In Aquifex aeolicus, CC-adding and A-adding enzymes collaboratively synthesize the CCA-3'. The mechanism of CCA-3' synthesis by these two enzymes remained obscure. We now present crystal structures representing CC addition onto tRNA by A. aeolicus CC-adding enzyme. After C₇₄ addition in an enclosed active pocket and pyrophosphate release, the tRNA translocates and rotates relative to the enzyme, and C₇₅ addition occurs in the same active pocket as C₇₄ addition. At both the C₇₄-adding and C₇₅-adding stages, CTP is selected by Watson-Crick-like hydrogen bonds between the cytosine of CTP and conserved Asp and Arg residues in the pocket. After C₇₄C₇₅ addition and pyrophosphate release, the tRNA translocates further and drops off the enzyme, and the CC-adding enzyme terminates RNA polymerization. PMID:24389024

  10. Nucleotide sequence of Streptomyces griseus initiator tRNA.

    Kuchino, Y; Yamamoto, I.; Nishimura, S.

    1982-01-01

    The primary structure of initiator tRNA from Streptomyces griseus was determined by post-labeling procedures. The nucleotide sequence is pC-G-C-G-G-G-G-U-G-G-A-G-C-A-G-C-U-C-G-G-D-A-G-C-U-C-G-C-U-G-G-G-C-U-C-A-U-A-A-C-C- C-A-G-A-G-G-U-C-G-C-A-G-G-U-psi-C-A-m1A-A-U-C-C-U-G-U-C-C-C-C-G-C-U-A-C-C-A0H. The unique feature of the sequence of this tRNA is that residue 54 is occupied by unmodified U, while ribothymidine is located in that position in most initiator tRNAs from eubacteria.

  11. Acinetobacter species identification by using tRNA spacer fingerprinting.

    Ehrenstein, B; Bernards, A T; Dijkshoorn, L.; Gerner-Smidt, P; Towner, K. J.; Bouvet, P J; Daschner, F D; Grundmann, H

    1996-01-01

    Identification of Acinetobacter spp. to the DNA group level by phenotypic techniques is problematic, and there is a need for an alternative identification method for routine use. The present study validated the suitability of a rapid identification technique based on tRNA spacer (tDNA) fingerprinting in comparison with that of a commercially available assay involving carbon source utilization tests (Biolog MicroStation System) for identifying the 21 DNA-DNA hybridization groups belonging to t...

  12. Photoaffinity labelling of t-RNA binding sites

    For the photoaffinity labelling of E.coli ribosomes in the region of peptidyl transferase, an analogue to the substrate peptidyl-tRNA-ethyl-2-diazomalalonyl-Phe-tRNAsup(Phe) was synthesized. UV irradiation of the reversible complex with 70S ribosomes and poly(U) led to the formation of a covalent bond between N-acyl-Phe-tRNA and 23S-rRNA. The irreversibly bound N-acyl-phenylalanyl group may be transferred to puromycin in a reaction catalyzed by peptidyl transferase, in the presence of the Phe-tRNA, it forms products of a peptide synthesis covalently bound to 23S-RNA. The 23S-rRNA sequence thus labelled, which has not yet been identified, should therefore be in the active centre of the peptidyl transferase or in its near neighbourhood. An analysis of the reaction product showed that the N-acyl-Phe-tRNA is bound specifically to one or more sites of a 3'-terminal 18S fragment of the 23S-RNA. An attempt to prove the existence of further tRNA interaction with ribosonal substrate binding sites led to the discovery of a poly(U2,G)-stimulated, UV-inducible irreversible binding of valin-specific tRNA (E.coli) to 16S-rRNA in one or several tRNA decoding sites. A preliminary analysis of the T1 fragments of tRNAsup(Val) after binding to 16S-rRNA indicates that the DHU loop of tRNA takes part in this photoreaction. (orig.)

  13. tRNA modifications regulate translation during cellular stress

    Gu, Chen; Thomas J Begley; Peter C. Dedon

    2014-01-01

    The regulation of gene expression in response to stress is an essential cellular protection mechanism. Recent advances in tRNA modification analysis and genome-based codon bias analytics have facilitated studies that lead to a novel model for translational control, with translation elongation dynamically regulated during stress responses. Stress-induced increases in specific anticodon wobble bases are required for the optimal translation of stress response transcripts that are significantly b...

  14. Thiolation Controls Cytoplasmic tRNA Stability and Acts as a Negative Determinant for tRNA Editing in Mitochondria

    Wohlgamuth-Benedum, J. M.; RUBIO, M. A. T.; Paris, Zdeněk; Long, Shaojun; Poliak, Pavel; Lukeš, Julius; Alfonzo, J. D.

    2009-01-01

    Roč. 284, č. 36 (2009), s. 23947-23953. ISSN 0021-9258 R&D Projects: GA ČR GA204/06/1558; GA MŠk LC07032; GA MŠk 2B06129 Institutional research plan: CEZ:AV0Z60220518 Keywords : T. brucei * tRNA * 2-thiolation * Fe-S cluster * editing Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 5.328, year: 2009

  15. Interaction of tRNA with MEK2 in pancreatic cancer cells

    Wang, Xiaoyun; Chow, Christina R.; Ebine, Kazumi; Lee, Jiyoung; Rosner, Marsha R.; Pan, Tao; Munshi, Hidayatullah G.

    2016-01-01

    Although the translational function of tRNA has long been established, extra translational functions of tRNA are still being discovered. We previously developed a computational method to systematically predict new tRNA-protein complexes and experimentally validated six candidate proteins, including the mitogen-activated protein kinase kinase 2 (MEK2), that interact with tRNA in HEK293T cells. However, consequences of the interaction between tRNA and these proteins remain to be elucidated. Here we tested the consequence of the interaction between tRNA and MEK2 in pancreatic cancer cell lines. We also generated disease and drug resistance-derived MEK2 mutants (Q60P, P128Q, S154F, E207K) to evaluate the function of the tRNA-MEK2 interaction. Our results demonstrate that tRNA interacts with the wild-type and mutant MEK2 in pancreatic cancer cells; furthermore, the MEK2 inhibitor U0126 significantly reduces the tRNA-MEK2 interaction. In addition, tRNA affects the catalytic activity of the wild type and mutant MEK2 proteins in different ways. Overall, our findings demonstrate the interaction of tRNA with MEK2 in pancreatic cancer cells and suggest that tRNA may impact MEK2 activity in cancer cells. PMID:27301426

  16. Analysis of the complement and molecular evolution of tRNA genes in cow

    Barris Wesley C

    2009-04-01

    Full Text Available Abstract Background Detailed information regarding the number and organization of transfer RNA (tRNA genes at the genome level is becoming readily available with the increase of DNA sequencing of whole genomes. However the identification of functional tRNA genes is challenging for species that have large numbers of repetitive elements containing tRNA derived sequences, such as Bos taurus. Reliable identification and annotation of entire sets of tRNA genes allows the evolution of tRNA genes to be understood on a genomic scale. Results In this study, we explored the B. taurus genome using bioinformatics and comparative genomics approaches to catalogue and analyze cow tRNA genes. The initial analysis of the cow genome using tRNAscan-SE identified 31,868 putative tRNA genes and 189,183 pseudogenes, where 28,830 of the 31,868 predicted tRNA genes were classified as repetitive elements by the RepeatMasker program. We then used comparative genomics to further discriminate between functional tRNA genes and tRNA-derived sequences for the remaining set of 3,038 putative tRNA genes. For our analysis, we used the human, chimpanzee, mouse, rat, horse, dog, chicken and fugu genomes to predict that the number of active tRNA genes in cow lies in the vicinity of 439. Of this set, 150 tRNA genes were 100% identical in their sequences across all nine vertebrate genomes studied. Using clustering analyses, we identified a new tRNA-GlyCCC subfamily present in all analyzed mammalian genomes. We suggest that this subfamily originated from an ancestral tRNA-GlyGCC gene via a point mutation prior to the radiation of the mammalian lineages. Lastly, in a separate analysis we created phylogenetic profiles for each putative cow tRNA gene using a representative set of genomes to gain an overview of common evolutionary histories of tRNA genes. Conclusion The use of a combination of bioinformatics and comparative genomics approaches has allowed the confident identification of a

  17. Silencing Near tRNA Genes Requires Nucleolar Localization*S

    Wang, Li; Haeusler, Rebecca A.; Good, Paul D.; Thompson, Martin; Nagar, Sapna; Engelke, David R.

    2005-01-01

    Transcription by RNA polymerase II is antagonized by the presence of a nearby tRNA gene in Saccharomyces cerevisiae. To test hypotheses concerning the mechanism of this tRNA gene-mediated (tgm) silencing, the effects of specific gene deletions were determined. The results show that the mechanism of silencing near tRNA genes is fundamentally different from other forms of transcriptional silencing in yeast. Rather, tgm silencing is dependent on the ability to cluster the dispersed tRNA genes in...

  18. Mod5 protein binds to tRNA gene complexes and affects local transcriptional silencing

    Pratt-Hyatt, Matthew; Pai, Dave A.; Haeusler, Rebecca A.; Wozniak, Glenn G.; Good, Paul D.; Miller, Erin L.; McLeod, Ian X.; Yates, John R.; Hopper, Anita K.; Engelke, David R.

    2013-01-01

    This study provides new insight into the requirements for observed silencing of RNA polymerase II transcription near tRNA genes. Mod5 is a conserved tRNA modification enzyme found in both the nucleus and cytoplasm, although it only modifies tRNAs in the cytoplasm. Mod5 is required for silencing near tRNA genes, and it is bound to both nuclear tRNA gene complexes and nuclear pre-tRNA transcripts. Possible mechanisms for this form of RNA-mediated transcriptional silencing are discussed.

  19. Crystallographic capture of a radical S-adenosylmethionine enzyme in the act of modifying tRNA.

    Schwalm, Erica L; Grove, Tyler L; Booker, Squire J; Boal, Amie K

    2016-04-15

    RlmN is a dual-specificity RNA methylase that modifies C2 of adenosine 2503 (A2503) in 23S rRNA and C2 of adenosine 37 (A37) in several Escherichia coli transfer RNAs (tRNAs). A related methylase, Cfr, modifies C8 of A2503 via a similar mechanism, conferring resistance to multiple classes of antibiotics. Here, we report the x-ray structure of a key intermediate in the RlmN reaction, in which a Cys(118)→Ala variant of the protein is cross-linked to a tRNA(Glu)substrate through the terminal methylene carbon of a formerly methylcysteinyl residue and C2 of A37. RlmN contacts the entire length of tRNA(Glu), accessing A37 by using an induced-fit strategy that completely unfolds the tRNA anticodon stem-loop, which is likely critical for recognition of both tRNA and ribosomal RNA substrates. PMID:27081063

  20. Loss of a Conserved tRNA Anticodon Modification Perturbs Plant Immunity.

    Ramírez, Vicente; Gonzalez, Beatriz; López, Ana; Castelló, María José; Gil, María José; Etherington, Graham J; Zheng, Bo; Chen, Peng; Vera, Pablo

    2015-10-01

    tRNA is the most highly modified class of RNA species, and modifications are found in tRNAs from all organisms that have been examined. Despite their vastly different chemical structures and their presence in different tRNAs, occurring in different locations in tRNA, the biosynthetic pathways of the majority of tRNA modifications include a methylation step(s). Recent discoveries have revealed unprecedented complexity in the modification patterns of tRNA, their regulation and function, suggesting that each modified nucleoside in tRNA may have its own specific function. However, in plants, our knowledge on the role of individual tRNA modifications and how they are regulated is very limited. In a genetic screen designed to identify factors regulating disease resistance and activation of defenses in Arabidopsis, we identified SUPPRESSOR OF CSB3 9 (SCS9). Our results reveal SCS9 encodes a tRNA methyltransferase that mediates the 2´-O-ribose methylation of selected tRNA species in the anticodon loop. These SCS9-mediated tRNA modifications enhance during the course of infection with the bacterial pathogen Pseudomonas syringae DC3000, and lack of such tRNA modification, as observed in scs9 mutants, severely compromise plant immunity against the same pathogen without affecting the salicylic acid (SA) signaling pathway which regulates plant immune responses. Our results support a model that gives importance to the control of certain tRNA modifications for mounting an effective immune response in Arabidopsis, and therefore expands the repertoire of molecular components essential for an efficient disease resistance response. PMID:26492405

  1. Loss of a Conserved tRNA Anticodon Modification Perturbs Plant Immunity.

    Vicente Ramírez

    2015-10-01

    Full Text Available tRNA is the most highly modified class of RNA species, and modifications are found in tRNAs from all organisms that have been examined. Despite their vastly different chemical structures and their presence in different tRNAs, occurring in different locations in tRNA, the biosynthetic pathways of the majority of tRNA modifications include a methylation step(s. Recent discoveries have revealed unprecedented complexity in the modification patterns of tRNA, their regulation and function, suggesting that each modified nucleoside in tRNA may have its own specific function. However, in plants, our knowledge on the role of individual tRNA modifications and how they are regulated is very limited. In a genetic screen designed to identify factors regulating disease resistance and activation of defenses in Arabidopsis, we identified SUPPRESSOR OF CSB3 9 (SCS9. Our results reveal SCS9 encodes a tRNA methyltransferase that mediates the 2´-O-ribose methylation of selected tRNA species in the anticodon loop. These SCS9-mediated tRNA modifications enhance during the course of infection with the bacterial pathogen Pseudomonas syringae DC3000, and lack of such tRNA modification, as observed in scs9 mutants, severely compromise plant immunity against the same pathogen without affecting the salicylic acid (SA signaling pathway which regulates plant immune responses. Our results support a model that gives importance to the control of certain tRNA modifications for mounting an effective immune response in Arabidopsis, and therefore expands the repertoire of molecular components essential for an efficient disease resistance response.

  2. tRNA - RMG | LSDB Archive [Life Science Database Archive metadata

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us ...genomes of other plants. Data file File name: rmg_trna.zip File URL: ftp://ftp.biosciencedbc.jp/archive/rmg/...cription Download License Update History of This Database Site Policy | Contact Us tRNA - RMG | LSDB Archive ...

  3. An NMR Approach to tRNA Tertiary Structure in Solution

    Robillard, G.T.; Tarr, C.E.; Vosman, F.; Sussman, J.L.

    1977-01-01

    Atomic coordinates of E. Coli tRNA1Val have been generated from the X-ray crystal structure of Yeast tRNAPhe by base substitution followed by idealization. The NMR spectrum of E. Coli tRNA1Val was then calculated using these coordinates and ring current calculations. The similarity between the calcu

  4. Human Emotion Recognition System

    Dilbag Singh

    2012-08-01

    Full Text Available This paper discusses the application of feature extraction of facial expressions with combination of neural network for the recognition of different facial emotions (happy, sad, angry, fear, surprised, neutral etc... Humans are capable of producing thousands of facial actions during communication that vary in complexity, intensity, and meaning. This paper analyses the limitations with existing system Emotion recognition using brain activity. In this paper by using an existing simulator I have achieved 97 percent accurate results and it is easy and simplest way than Emotion recognition using brain activity system. Purposed system depends upon human face as we know face also reflects the human brain activities or emotions. In this paper neural network has been used for better results. In the end of paper comparisons of existing Human Emotion Recognition System has been made with new one.

  5. tRNA gene diversity in the three domains of life

    Kosuke eFujishima

    2014-05-01

    Full Text Available Transfer RNA (tRNA is widely known for its key role in decoding mRNA into protein. Despite their necessity and relatively short nucleotide sequences, a large diversity of gene structures and RNA secondary structures of pre-tRNAs and mature tRNAs have recently been discovered in the three domains of life. Growing evidences of disrupted tRNA genes in the genomes of Archaea reveals unique gene structures such as, intron-containing tRNA, split tRNA, and permuted tRNA. Coding sequence for these tRNAs are either separated with introns, fragmented, or permuted at the genome level. Although evolutionary scenario behind the tRNA gene disruption is still unclear, diversity of tRNA structure seems to be co-evolved with their processing enzyme, so-called RNA splicing endonuclease. Metazoan mitochondrial tRNAs (mtRNAs are known for their unique lack of either one or two arms from the typical tRNA cloverleaf structure, while still maintaining functionality. Recently identified nematode-specific V-arm containing tRNAs (nev-tRNAs possess long variable arms that are specific to eukaryotic class II tRNASer and tRNALeu but also decode class I tRNA codons. Moreover, many tRNA-like sequences have been found in the genomes of different organisms and viruses. Thus this review is aimed to cover the latest knowledge on tRNA gene diversity and further recapitulate the evolutionary and biological aspects that caused such uniqueness.

  6. A modified dinucleotide motif specifies tRNA recognition by TLR7

    Kaiser, Steffen; Rimbach, Katharina; Eigenbrod, Tatjana; Dalpke, Alexander H.; Helm, Mark

    2014-01-01

    Innate sensing of DNA or RNA molecules comes with the great risk of autoimmune response and is, therefore, tightly controlled. This paper describes why some tRNAs activate TLR7, whereas others do not.

  7. Analogies between the tRNA methylating enzymes and tRNA's in embryonic and tumor tissues

    Borek, E.

    1975-01-01

    Progress is reported in the following areas of research, role of tRNA in protein synthesis and as a carrier of amino acids; histidine pathway in Salmonella typhimurium; role of tRNA in regulation of translation; ribosomal binding reactions; role of tRNA in hemoglobin synthesis; population of tRNA's in mutant of Drosophila; methylation of tRNA and DNA by dimethylnitrosamine; purification of DNA methylase from HeLa cell nuclei; effects of age on levels of excretion of tRNA breakdown products in cancer patients; and tyrosyl tRNA's in embryonic and adult liver and in hepatomas. (HLW)

  8. Examining the Gm18 and m1G Modification Positions in tRNA Sequences

    Subramanian, Mayavan; Srinivasan, Thangavelu

    2014-01-01

    The tRNA structure contains conserved modifications that are responsible for its stability and are involved in the initiation and accuracy of the translation process. tRNA modification enzymes are prevalent in bacteria, archaea, and eukaryotes. tRNA Gm18 methyltransferase (TrmH) and tRNA m1G37 methyltransferase (TrmD) are prevalent and essential enzymes in bacterial populations. TrmH involves itself in methylation process at the 2'-OH group of ribose at the 18th position of guanosine (G) in tRNAs. TrmD methylates the G residue next to the anticodon in selected tRNA subsets. Initially, m1G37 modification was reported to take place on three conserved tRNA subsets (tRNAArg, tRNALeu, tRNAPro); later on, few archaea and eukaryotes organisms revealed that other tRNAs also have the m1G37 modification. The present study reveals Gm18, m1G37 modification, and positions of m1G that take place next to the anticodon in tRNA sequences. We selected extremophile organisms and attempted to retrieve the m1G and Gm18 modification bases in tRNA sequences. Results showed that the Gm18 modification G residue occurs in all tRNA subsets except three tRNAs (tRNAMet, tRNAPro, tRNAVal). Whereas the m1G37 modification base G is formed only on tRNAArg, tRNALeu, tRNAPro, and tRNAHis, the rest of the tRNAs contain adenine (A) next to the anticodon. Thus, we hypothesize that Gm18 modification and m1G modification occur irrespective of a G residue in tRNAs. PMID:25031570

  9. Interaction of tRNA with Eukaryotic Ribosome

    Dmitri Graifer

    2015-03-01

    Full Text Available This paper is a review of currently available data concerning interactions of tRNAs with the eukaryotic ribosome at various stages of translation. These data include the results obtained by means of cryo-electron microscopy and X-ray crystallography applied to various model ribosomal complexes, site-directed cross-linking with the use of tRNA derivatives bearing chemically or photochemically reactive groups in the CCA-terminal fragment and chemical probing of 28S rRNA in the region of the peptidyl transferase center. Similarities and differences in the interactions of tRNAs with prokaryotic and eukaryotic ribosomes are discussed with concomitant consideration of the extent of resemblance between molecular mechanisms of translation in eukaryotes and bacteria.

  10. Efficient Biometric Iris Recognition Using Hough Transform

    Kriti Sharma*1,; Himanshu Monga2

    2014-01-01

    The demand for an accurate biometric system that provides reliable identification and verification of an individual has increased over the years. A biometric system that provides reliable and accurate identification of an individual is an iris recognition system. Iris recognition systems capture an image of an individual's eye; the iris in the image is then segmented and normalized for feature extraction process. The performance of iris recognition systems highly depends on se...

  11. A fungal anticodon nuclease ribotoxin exploits a secondary cleavage site to evade tRNA repair.

    Meineke, Birthe; Kast, Alene; Schwer, Beate; Meinhardt, Friedhelm; Shuman, Stewart; Klassen, Roland

    2012-09-01

    PaOrf2 and γ-toxin subunits of Pichia acaciae toxin (PaT) and Kluyveromyces lactis zymocin are tRNA anticodon nucleases. These secreted ribotoxins are assimilated by Saccharomyces cerevisiae, wherein they arrest growth by depleting specific tRNAs. Toxicity can be recapitulated by induced intracellular expression of PaOrf2 or γ-toxin in S. cerevisiae. Mutational analysis of γ-toxin has identified amino acids required for ribotoxicity in vivo and RNA transesterification in vitro. Here, we report that PaOrf2 residues Glu9 and His287 (putative counterparts of γ-toxin Glu9 and His209) are essential for toxicity. Our results suggest a similar basis for RNA transesterification by PaOrf2 and γ-toxin, despite their dissimilar primary structures and distinctive tRNA target specificities. PaOrf2 makes two sequential incisions in tRNA, the first of which occurs 3' from the mcm(5)s(2)U wobble nucleoside and depends on mcm(5). A second incision two nucleotides upstream results in the net excision of a di-nucleotide. Expression of phage and plant tRNA repair systems can relieve PaOrf2 toxicity when tRNA cleavage is restricted to the secondary site in elp3 cells that lack the mcm(5) wobble U modification. Whereas the endogenous yeast tRNA ligase Trl1 can heal tRNA halves produced by PaOrf2 cleavage in elp3 cells, its RNA sealing activity is inadequate to complete the repair. Compatible sealing activity can be provided in trans by plant tRNA ligase. The damage-rescuing ability of tRNA repair systems is lost when PaOrf2 can break tRNA at both sites. These results highlight the logic of a two-incision mechanism of tRNA anticodon damage that evades productive repair by tRNA ligases. PMID:22836353

  12. Mutations affecting excision of the intron from a eukaryotic dimeric tRNA precursor.

    Willis, I; Hottinger, H; Pearson, D.; Chisholm, V; Leupold, U; Söll, D

    1984-01-01

    The nucleotide sequences of a Schizosaccharomyces pombe opal suppressor serine tRNA gene (sup9-e) and of 12 in vivo-generated mutant genes, which have lost the ability to suppress UGA mutations, have been determined. Analysis of the expression of these genes in Saccharomyces cerevisiae in vitro and in vivo systems has revealed defects in tRNA gene transcription and precursor tRNA processing. Single base changes in the D-loop, the intron and the extra arm affect the efficiency of splicing of t...

  13. Isolation and nucleotide sequence of a mouse histidine tRNA gene.

    Han, J. H.; Harding, J D

    1982-01-01

    We have sequenced a 1307 base pair mouse genomic DNA fragment which contains a histidine tRNA gene. The sequence of the putative mouse histidine tRNA differs from the published sequence of sheep liver histidine tRNA by a single base change in the D-loop. It does not contain an unpaired 5' terminal G residue, as reported for Drosophila and sheep histidine tRNAs. The gene does not contain introns. The 3' flanking region contains a typical RNA polymerase III termination site of 6 consecutive T r...

  14. A one-step method for in vitro production of tRNA transcripts

    Korenčić, Dragana; Söll, Dieter; Ambrogelly, Alexandre

    2002-01-01

    Sequencing of a large number of microbial genomes has led to the discovery of new enzymes involved in tRNA biosynthesis and tRNA function. Preparation of a great variety of RNA molecules is, therefore, of major interest for biochemical characterization of these proteins. We describe a fast, cost-effective and efficient method for in vitro production of tRNA transcripts. T7 RNA polymerase requires a double-stranded DNA promoter in order to initiate transcription; however, elongation does not r...

  15. Lysine tRNA and cell division: a G1 cell cycle mutant is temperature sensitive for the modification of tRNA5Lys to tRNA4Lys.

    Ortwerth, B J; Lin, V K; Lewis, J.; Wang, R. J.

    1984-01-01

    Ts-694 is a temperature sensitive mutant of hamster cells which is blocked in the G1 phase of the cell cycle at the restrictive temperature of 39 degrees. A comparison of the Lys-tRNA isoacceptors by RPC-5 chromatography showed a decrease in tRNA5Lys and an increase in tRNA4Lys at 39 degrees. This was identical to the changes seen in confluent cultures at the permissive temperature of 33 degrees. These Lys-tRNA changes were not seen in ts-694 cells blocked in G1 by isoleucine deficiency, nor ...

  16. Face Recognition

    Haugen, Liv Merete; Olavsbråten, Inge

    2007-01-01

    Machine based face recognition has been a popular research area for several years, and has numerous applications. This technology has now reached a point where there already exists good algorithms for recognition for standardized still images - which have little variation in e.g. lighting, facial expression and pose. We are however in lack of good algorithms that are able to do recognition from live video. The low quality of most surveillance cameras, together with non-standardized imaging c...

  17. Structures of the Bacterial Ribosome in Classical and Hybrid States of tRNA Binding

    Dunkle, Jack A.; Wang, Leyi; Feldman, Michael B.; Pulk, Arto; Chen, Vincent B.; Kapral, Gary J.; Noeske, Jonas; Richardson, Jane S.; Blanchard, Scott C.; Cate, Jamie H. Doudna (Cornell); (UCB); (Duke)

    2011-09-06

    During protein synthesis, the ribosome controls the movement of tRNA and mRNA by means of large-scale structural rearrangements. We describe structures of the intact bacterial ribosome from Escherichia coli that reveal how the ribosome binds tRNA in two functionally distinct states, determined to a resolution of {approx}3.2 angstroms by means of x-ray crystallography. One state positions tRNA in the peptidyl-tRNA binding site. The second, a fully rotated state, is stabilized by ribosome recycling factor and binds tRNA in a highly bent conformation in a hybrid peptidyl/exit site. The structures help to explain how the ratchet-like motion of the two ribosomal subunits contributes to the mechanisms of translocation, termination, and ribosome recycling.

  18. Base-pairing versatility determines wobble sites in tRNA anticodons of vertebrate mitogenomes.

    Miguel M Fonseca

    Full Text Available BACKGROUND: Vertebrate mitochondrial genomes typically have one transfer RNA (tRNA for each synonymous codon family. This limited anticodon repertoire implies that each tRNA anticodon needs to wobble (establish a non-Watson-Crick base pairing between two nucleotides in RNA molecules to recognize one or more synonymous codons. Different hypotheses have been proposed to explain the factors that determine the nucleotide composition of wobble sites in vertebrate mitochondrial tRNA anticodons. Until now, the two major postulates--the "codon-anticodon adaptation hypothesis" and the "wobble versatility hypothesis"--have not been formally tested in vertebrate mitochondria because both make the same predictions regarding the composition of anticodon wobble sites. The same is true for the more recent "wobble cost hypothesis". PRINCIPAL FINDINGS: In this study we have analyzed the occurrence of synonymous codons and tRNA anticodon wobble sites in 1553 complete vertebrate mitochondrial genomes, focusing on three fish species with mtDNA codon usage bias reversal (L-strand is GT-rich. These mitogenomes constitute an excellent opportunity to study the evolution of the wobble nucleotide composition of tRNA anticodons because due to the reversal the predictions for the anticodon wobble sites differ between the existing hypotheses. We observed that none of the wobble sites of tRNA anticodons in these unusual mitochondrial genomes coevolved to match the new overall codon usage bias, suggesting that nucleotides at the wobble sites of tRNA anticodons in vertebrate mitochondrial genomes are determined by wobble versatility. CONCLUSIONS/SIGNIFICANCE: Our results suggest that, at wobble sites of tRNA anticodons in vertebrate mitogenomes, selection favors the most versatile nucleotide in terms of wobble base-pairing stability and that wobble site composition is not influenced by codon usage. These results are in agreement with the "wobble versatility hypothesis".

  19. Competing pathways control host resistance to virus via tRNA modification and programmed ribosomal frameshifting

    Maynard, Nathaniel D.; Macklin, Derek N.; Kirkegaard, Karla; Covert, Markus W

    2012-01-01

    Viral infection depends on a complex interplay between host and viral factors. Here, we link host susceptibility to viral infection to a network encompassing sulfur metabolism, tRNA modification, competitive binding, and programmed ribosomal frameshifting (PRF). We first demonstrate that the iron-sulfur cluster biosynthesis pathway in Escherichia coli exerts a protective effect during lambda phage infection, while a tRNA thiolation pathway enhances viral infection. We show that tRNALys uridin...

  20. Yeast mitochondrial threonyl-tRNA synthetase recognizes tRNA isoacceptors by distinct mechanisms and promotes CUN codon reassignment

    Ling, Jiqiang; Peterson, Kaitlyn M.; Simonovic, Ivana; Cho, Chris; Soll, Dieter; Simonovic, Miljan (Yale); (UIC)

    2014-03-12

    Aminoacyl-tRNA synthetases (aaRSs) ensure faithful translation of mRNA into protein by coupling an amino acid to a set of tRNAs with conserved anticodon sequences. Here, we show that in mitochondria of Saccharomyces cerevisiae, a single aaRS (MST1) recognizes and aminoacylates two natural tRNAs that contain anticodon loops of different size and sequence. Besides a regular ?? with a threonine (Thr) anticodon, MST1 also recognizes an unusual ??, which contains an enlarged anticodon loop and an anticodon triplet that reassigns the CUN codons from leucine to threonine. Our data show that MST1 recognizes the anticodon loop in both tRNAs, but employs distinct recognition mechanisms. The size but not the sequence of the anticodon loop is critical for ?? recognition, whereas the anticodon sequence is essential for aminoacylation of ??. The crystal structure of MST1 reveals that, while lacking the N-terminal editing domain, the enzyme closely resembles the bacterial threonyl-tRNA synthetase (ThrRS). A detailed structural comparison with Escherichia coli ThrRS, which is unable to aminoacylate ??, reveals differences in the anticodon-binding domain that probably allow recognition of the distinct anticodon loops. Finally, our mutational and modeling analyses identify the structural elements in MST1 (e.g., helix {alpha}11) that define tRNA selectivity. Thus, MTS1 exemplifies that a single aaRS can recognize completely divergent anticodon loops of natural isoacceptor tRNAs and that in doing so it facilitates the reassignment of the genetic code in yeast mitochondria.

  1. tRNA sequence data, annotation data and curation data - tRNADB-CE | LSDB Archive [Life Science Database Archive metadata

    Full Text Available [ Credits ] BLAST Search Image Search Home About Archive Update History Contact us tRNADB-CE tRNA sequence... data, annotation data and curation data Data detail Data name tRNA sequence data, an... first intron 1st Intron end position End position of first intron Seq tRNA sequence Upstream seq. tRNA gene upstream sequence...-leaf secondary structures of tRNA gene Downstream seq. tRNA gene downstream sequence (10 bps) 1st Intron seq. First intron sequence...nd position of second intron 2st Intron seq. Second intron sequence Decision from

  2. Research on Radar Emitter Attribute Recognition Method

    2006-01-01

    In order to solve emitter recognition problems in a practical reconnaissance environment, attribute mathematics is introduced. The basic concepts and theory of attribute set and attribute measure are described in detail. A new attribute recognition method based on attribute measure is presented in this paper. Application example is given, which demonstrates this new method is accurate and effective. Moreover, computer simulation for recognizing the emitter purpose is selected, and compared with classical statistical pattern recognition through simulation. The excellent experimental results demonstrate that this is a brand-new attribute recognition method as compared to existing statistical pattern recognition techniques.

  3. Speech recognition based on pattern recognition techniques

    Rabiner, Lawrence R.

    1990-05-01

    Algorithms for speech recognition can be characterized broadly as pattern recognition approaches and acoustic phonetic approaches. To date, the greatest degree of success in speech recognition has been obtained using pattern recognition paradigms. The use of pattern recognition techniques were applied to the problems of isolated word (or discrete utterance) recognition, connected word recognition, and continuous speech recognition. It is shown that understanding (and consequently the resulting recognizer performance) is best to the simplest recognition tasks and is considerably less well developed for large scale recognition systems.

  4. Tertiary structure of bacterial selenocysteine tRNA.

    Itoh, Yuzuru; Sekine, Shun-ichi; Suetsugu, Shiro; Yokoyama, Shigeyuki

    2013-07-01

    Selenocysteine (Sec) is translationally incorporated into proteins in response to the UGA codon. The tRNA specific to Sec (tRNA(Sec)) is first ligated with serine by seryl-tRNA synthetase (SerRS). In the present study, we determined the 3.1 Å crystal structure of the tRNA(Sec) from the bacterium Aquifex aeolicus, in complex with the heterologous SerRS from the archaeon Methanopyrus kandleri. The bacterial tRNA(Sec) assumes the L-shaped structure, from which the long extra arm protrudes. Although the D-arm conformation and the extra-arm orientation are similar to those of eukaryal/archaeal tRNA(Sec)s, A. aeolicus tRNA(Sec) has unique base triples, G14:C21:U8 and C15:G20a:G48, which occupy the positions corresponding to the U8:A14 and R15:Y48 tertiary base pairs of canonical tRNAs. Methanopyrus kandleri SerRS exhibited serine ligation activity toward A. aeolicus tRNA(Sec) in vitro. The SerRS N-terminal domain interacts with the extra-arm stem and the outer corner of tRNA(Sec). Similar interactions exist in the reported tRNA(Ser) and SerRS complex structure from the bacterium Thermus thermophilus. Although the catalytic C-terminal domain of M. kandleri SerRS lacks interactions with A. aeolicus tRNA(Sec) in the present complex structure, the conformational flexibility of SerRS is likely to allow the CCA terminal region of tRNA(Sec) to enter the SerRS catalytic site. PMID:23649835

  5. tRNA binding, positioning, and modification by the pseudouridine synthase Pus10.

    Kamalampeta, Rajashekhar; Keffer-Wilkes, Laura C; Kothe, Ute

    2013-10-23

    Pus10 is the most recently identified pseudouridine synthase found in archaea and higher eukaryotes. It modifies uridine 55 in the TΨC arm of tRNAs. Here, we report the first quantitative biochemical analysis of tRNA binding and pseudouridine formation by Pyrococcus furiosus Pus10. The affinity of Pus10 for both substrate and product tRNA is high (Kd of 30nM), and product formation occurs with a Km of 400nM and a kcat of 0.9s(-1). Site-directed mutagenesis was used to demonstrate that the thumb loop in the catalytic domain is important for efficient catalysis; we propose that the thumb loop positions the tRNA within the active site. Furthermore, a new catalytic arginine residue was identified (arginine 208), which is likely responsible for triggering flipping of the target uridine into the active site of Pus10. Lastly, our data support the proposal that the THUMP-containing domain, found in the N-terminus of Pus10, contributes to binding of tRNA. Together, our findings are consistent with the hypothesis that tRNA binding by Pus10 occurs through an induced-fit mechanism, which is a prerequisite for efficient pseudouridine formation. PMID:23743107

  6. Locating the binding sites of antioxidants resveratrol, genistein and curcumin with tRNA.

    N'soukpoé-Kossi, C N; Bourassa, P; Mandeville, J S; Bekale, L; Bariyanga, J; Tajmir-Riahi, H A

    2015-09-01

    We located the binding sites of antioxidants resveratrol, genistein and curcumin on tRNA in aqueous solution at physiological conditions using constant tRNA concentration and various polyphenol contents. FTIR, UV-visible, CD spectroscopic methods and molecular modeling were used to determine polyphenol binding sites, the binding constant and the effects of polyphenol complexation on tRNA conformation and particle formation. Structural analysis showed that polyphenols bind tRNA via G-C and A-U base pairs through hydrophilic, hydrophobic and H-bonding contacts with overall binding constants of K(res-tRNA)=8.95(±0.80)×10(3) M(-1), K(gen-tRNA)=3.07(±0.5)×10(3) M(-1) and K(cur-tRNA)=1.55(±0.3)×10(4) M(-1). Molecular modeling showed the participation of several nucleobases in polyphenol-tRNA adduct formation with free binding energy of -4.43 for resveratrol, -4.26 kcal/mol for genistein and -4.84 kcal/mol for curcumin, indicating that the interaction process is spontaneous at room temperature. While tRNA remains in A-family structure, major biopolymer aggregation and particle formation occurred at high polyphenol contents. PMID:26093317

  7. Antibiotic inhibition of the movement of tRNA substrates through a peptidyl transferase cavity

    Porse, B T; Rodriguez-Fonseca, C; Leviev, I;

    1996-01-01

    The present review attempts to deal with movement of tRNA substrates through the peptidyl transferase centre on the large ribosomal subunit and to explain how this movement is interrupted by antibiotics. It builds on the concept of hybrid tRNA states forming on ribosomes and on the observed...... movement of the 5' end of P-site-bound tRNA relative to the ribosome that occurs on peptide bond formation. The 3' ends of the tRNAs enter, and move through, a catalytic cavity where antibiotics are considered to act by at least three primary mechanisms: (i) they interfere with the entry of the aminoacyl...... moiety into the catalytic cavity before peptide bond formation; (ii) they inhibit movement of the nascent peptide along the peptide channel, a process that may generally involve destabilization of the peptidyl tRNA, and (iii) they prevent movement of the newly deacylated tRNA between the P/P and hybrid P...

  8. Calcium regulates the expression of a Dictyostelium discoideum asparaginyl tRNA synthetase gene

    Jyoti K Jaiswal; Vidyanand Nanjundiah

    2003-12-01

    In a screen for calcium-regulated gene expression during growth and development of Dictyostelium discoideum we have identified an asparaginyl tRNA synthetase (ddAsnRS) gene, the second tRNA synthetase gene identified in this organism. The ddAsnRS gene shows many unique features. One, it is repressed by lowering cellular calcium, making it the first known calcium-regulated tRNA synthetase. Two, despite the calcium-dependence, its expression is unaltered during the cell cycle, making this the first D. discoideum gene to show a calcium-dependent but cell cycle phase-independent expression. Finally, the N-terminal domain of the predicted ddAsnRS protein shows higher sequence similarity to Glutaminyl tRNA synthetases than to other Asn tRNA synthetases. These unique features of the AsnRS from this primitive eukaryote not only point to a novel mechanism regulating the components of translation machinery and gene expression by calcium, but also hint at a link between the evolution of GlnRS and AsnRS in eukaryotes.

  9. From Prebiotics to Probiotics: The Evolution and Functions of tRNA Modifications.

    McKenney, Katherine M; Alfonzo, Juan D

    2016-01-01

    All nucleic acids in cells are subject to post-transcriptional chemical modifications. These are catalyzed by a myriad of enzymes with exquisite specificity and that utilize an often-exotic array of chemical substrates. In no molecule are modifications more prevalent than in transfer RNAs. In the present document, we will attempt to take a chemical rollercoaster ride from prebiotic times to the present, with nucleoside modifications as key players and tRNA as the centerpiece that drove the evolution of biological systems to where we are today. These ideas will be put forth while touching on several examples of tRNA modification enzymes and their modus operandi in cells. In passing, we submit that the choice of tRNA is not a whimsical one but rather highlights its critical function as an essential invention for the evolution of protein enzymes. PMID:26985907

  10. Customer recognition and competition

    Shy, Oz; Stenbacka , Rune

    2011-01-01

    We introduce three types of consumer recognition: identity recognition, asymmetric preference recognition, and symmetric preference recognition. We characterize price equilibria and compare profits, consumer surplus, and total welfare. Asymmetric preference recognition enhances profits compared with identity recognition, but firms have no incentive to exchange information regarding customer-specific preferences (symmetric preference recognition). Consumers would benefit from a policy panning ...

  11. Dynamic recognition from ship-radiated noise

    LI Xungao; FENG Xinxin; GE Yi

    2005-01-01

    On the basis of envelope spectrum analysis of ship-radiated noise, the features and the extracting methods are discussed, and then a new method of dynamic recognition has been proposed. Using this method, accurate recognition rate for different types of ship targets can be effectively improved, and some of the important parameters of target's movement can be obtained at the same time.

  12. Robotic CCD microscope for enhanced crystal recognition

    Segelke, Brent W.; Toppani, Dominique

    2007-11-06

    A robotic CCD microscope and procedures to automate crystal recognition. The robotic CCD microscope and procedures enables more accurate crystal recognition, leading to fewer false negative and fewer false positives, and enable detection of smaller crystals compared to other methods available today.

  13. A voltage-gated pore for translocation of tRNA

    Koley, Sandip; Adhya, Samit, E-mail: nilugrandson@gmail.com

    2013-09-13

    Highlights: •A tRNA translocating complex was assembled from purified proteins. •The complex translocates tRNA at a membrane potential of ∼60 mV. •Translocation requires Cys and His residues in the Fe–S center of RIC6 subunit. -- Abstract: Very little is known about how nucleic acids are translocated across membranes. The multi-subunit RNA Import Complex (RIC) from mitochondria of the kinetoplastid protozoon Leishmania tropica induces translocation of tRNAs across artificial or natural membranes, but the nature of the translocation pore remains unknown. We show that subunits RIC6 and RIC9 assemble on the membrane in presence of subunit RIC4A to form complex R3. Atomic Force Microscopy of R3 revealed particles with an asymmetric surface groove of ∼20 nm rim diameter and ∼1 nm depth. R3 induced translocation of tRNA into liposomes when the pH of the medium was lowered to ∼6 in the absence of ATP. R3-mediated tRNA translocation could also be induced at neutral pH by a K{sup +} diffusion potential with an optimum of 60–70 mV. Point mutations in the Cys{sub 2}–His{sub 2} Fe-binding motif of RIC6, which is homologous to the respiratory Complex III Fe–S protein, abrogated import induced by low pH but not by K{sup +} diffusion potential. These results indicate that the R3 complex forms a pore that is gated by a proton-generated membrane potential and that the Fe–S binding region of RIC6 has a role in proton translocation. The tRNA import complex of L. tropica thus contains a novel macromolecular channel distinct from the mitochondrial protein import pore that is apparently involved in tRNA import in some species.

  14. RNA editing changes the identity of a mitochondrial tRNA in marsupials.

    Börner, G V; Mörl, M.; Janke, A.; Pääbo, S

    1996-01-01

    In the mitochondrial genome of marsupials, the tRNA gene located at the position where in other mammals an aspartyl-tRNA is encoded carries the glycine anticodon GCC. Post-transcriptionally, an RNA editing mechanism affects the second position of the anticodon such that the aspartate anticodon GUC is created in approximately 50% of the mature tRNA pool. We show that the unedited version of this tRNA'Asp' (GCC) can be specifically aminoacylated with glycine in vitro, while the edited version b...

  15. Quantitative single cell monitoring of protein synthesis at subcellular resolution using fluorescently labeled tRNA

    Barhoom, Sima; Kaur, Jaskiran; Cooperman, Barry S.; Smorodinsky, Nechama I.; Smilansky, Zeev; Ehrlich, Marcelo; Elroy-Stein, Orna

    2011-01-01

    We have developed a novel technique of using fluorescent tRNA for translation monitoring (FtTM). FtTM enables the identification and monitoring of active protein synthesis sites within live cells at submicron resolution through quantitative microscopy of transfected bulk uncharged tRNA, fluorescently labeled in the D-loop (fl-tRNA). The localization of fl-tRNA to active translation sites was confirmed through its co-localization with cellular factors and its dynamic alterations upon inhibitio...

  16. Protozoan ALKBH8 Oxygenases Display both DNA Repair and tRNA Modification Activities

    Zdżalik, Daria; Vågbø, Cathrine B; Kirpekar, Finn;

    2014-01-01

    1-8 and FTO. Mammalian and plant ALKBH8 are tRNA hydroxylases targeting 5-methoxycarbonylmethyl-modified uridine (mcm5U) at the wobble position of tRNAGly(UCC). In contrast, the genomes of some bacteria encode a protein with strong sequence homology to ALKBH8, and robust DNA repair activity was......, interestingly, two protozoan ALKBH8s also catalyzed wobble uridine modification of tRNA, thus displaying a dual in vitro activity. Also, we found the modification status of tRNAGly(UCC) to be unaltered in an ALKBH8 deficient mutant of Agrobacterium tumefaciens, indicating that bacterial ALKBH8s have a function...

  17. Anticodon loop mutations perturb reading frame maintenance by the E site tRNA

    Sanders, Christina L.; Lohr, Kristin J.; Gambill, Holly L.; Curran, Ryan B.; Curran, James F.

    2008-01-01

    The ribosomal E site helps hold the reading frame. Certain tRNA mutations affect translation, and anticodon loop mutations can be especially detrimental. We studied the effects of mutations saturating the anticodon loop of the amber suppressor tRNA, Su7, on the ability to help hold the reading frame when in the E site. We also tested three mutations in the anticodon stem, as well as a mutation in the D stem (the “Hirsh” mutation). We used the Escherichia coli RF2 programmed frameshift site to...

  18. Monitoring Protein Synthesis in Living Cells with Fluorescent Labeled tRNA FRET Pairs

    Barhoom, Sima; Farrel, Ian; Dahary, Dvir; Ehrlich, Marcelo; Cooperman, Barry S.; Elroy-Stein, Orna; Smilansky, Zeev

    2013-01-01

    We introduce Protein Synthesis Monitoring (PSM) – a technique to monitor protein synthesis in live cells. In PSM, we transfect cells with tRNA labeled as FRET donors and acceptors. A FRET signal is generated only when a donor- and an acceptor-labeled tRNA come in close contact (< 7nM), as they do on the ribosome during elongation. The intensity of the FRET signal correlates with the number of ribosomes engaged in protein synthesis, providing a real-time, live-cell assay for measuring rates of...

  19. Probabilistic Open Set Recognition

    Jain, Lalit Prithviraj

    Real-world tasks in computer vision, pattern recognition and machine learning often touch upon the open set recognition problem: multi-class recognition with incomplete knowledge of the world and many unknown inputs. An obvious way to approach such problems is to develop a recognition system that thresholds probabilities to reject unknown classes. Traditional rejection techniques are not about the unknown; they are about the uncertain boundary and rejection around that boundary. Thus traditional techniques only represent the "known unknowns". However, a proper open set recognition algorithm is needed to reduce the risk from the "unknown unknowns". This dissertation examines this concept and finds existing probabilistic multi-class recognition approaches are ineffective for true open set recognition. We hypothesize the cause is due to weak adhoc assumptions combined with closed-world assumptions made by existing calibration techniques. Intuitively, if we could accurately model just the positive data for any known class without overfitting, we could reject the large set of unknown classes even under this assumption of incomplete class knowledge. For this, we formulate the problem as one of modeling positive training data by invoking statistical extreme value theory (EVT) near the decision boundary of positive data with respect to negative data. We provide a new algorithm called the PI-SVM for estimating the unnormalized posterior probability of class inclusion. This dissertation also introduces a new open set recognition model called Compact Abating Probability (CAP), where the probability of class membership decreases in value (abates) as points move from known data toward open space. We show that CAP models improve open set recognition for multiple algorithms. Leveraging the CAP formulation, we go on to describe the novel Weibull-calibrated SVM (W-SVM) algorithm, which combines the useful properties of statistical EVT for score calibration with one-class and binary

  20. Movement of the 3'-end of tRNA through the peptidyl transferase centre and its inhibition by antibiotics

    Kirillov, Stanislav; Porse, Bo Torben; Vester, Birthe;

    1997-01-01

    Determining how antibiotics inhibit ribosomal activity requires a detailed understanding of the interactions and relative movement of tRNA, mRNA and the ribosome. Recent models for the formation of hybrid tRNA binding sites during the elongation cycle have provided a basis for re-evaluating earlier...... experimental data and, especially, those relevant to substrate movements through the peptidyl transferase centre. With the exception of deacylated tRNA, which binds at the E-site, ribosomal interactions of the 3'-ends of the tRNA substrates generate only a small part of the total free energy of tRNA......-ribosome binding. Nevertheless, these relatively weak interactions determine the unidirectional movement of tRNAs through the ribosome and, moreover, they appear to be particularly susceptible to perturbation by antibiotics. Here we summarise current ideas relating particularly to the movement of the 3'-ends of tRNA...

  1. A nutrient-driven tRNA modification alters translational fidelity and genome-wide protein coding across an animal genus.

    John M Zaborske

    2014-12-01

    Full Text Available Natural selection favors efficient expression of encoded proteins, but the causes, mechanisms, and fitness consequences of evolved coding changes remain an area of aggressive inquiry. We report a large-scale reversal in the relative translational accuracy of codons across 12 fly species in the Drosophila/Sophophora genus. Because the reversal involves pairs of codons that are read by the same genomically encoded tRNAs, we hypothesize, and show by direct measurement, that a tRNA anticodon modification from guanosine to queuosine has coevolved with these genomic changes. Queuosine modification is present in most organisms but its function remains unclear. Modification levels vary across developmental stages in D. melanogaster, and, consistent with a causal effect, genes maximally expressed at each stage display selection for codons that are most accurate given stage-specific queuosine modification levels. In a kinetic model, the known increased affinity of queuosine-modified tRNA for ribosomes increases the accuracy of cognate codons while reducing the accuracy of near-cognate codons. Levels of queuosine modification in D. melanogaster reflect bioavailability of the precursor queuine, which eukaryotes scavenge from the tRNAs of bacteria and absorb in the gut. These results reveal a strikingly direct mechanism by which recoding of entire genomes results from changes in utilization of a nutrient.

  2. Facial Recognition

    Mihalache Sergiu

    2014-05-01

    Full Text Available During their lifetime, people learn to recognize thousands of faces that they interact with. Face perception refers to an individual's understanding and interpretation of the face, particularly the human face, especially in relation to the associated information processing in the brain. The proportions and expressions of the human face are important to identify origin, emotional tendencies, health qualities, and some social information. From birth, faces are important in the individual's social interaction. Face perceptions are very complex as the recognition of facial expressions involves extensive and diverse areas in the brain. Our main goal is to put emphasis on presenting human faces specialized studies, and also to highlight the importance of attractiviness in their retention. We will see that there are many factors that influence face recognition.

  3. Tissue- and Time-Specific Expression of Otherwise Identical tRNA Genes.

    Sagi, Dror; Rak, Roni; Gingold, Hila; Adir, Idan; Maayan, Gadi; Dahan, Orna; Broday, Limor; Pilpel, Yitzhak; Rechavi, Oded

    2016-08-01

    Codon usage bias affects protein translation because tRNAs that recognize synonymous codons differ in their abundance. Although the current dogma states that tRNA expression is exclusively regulated by intrinsic control elements (A- and B-box sequences), we revealed, using a reporter that monitors the levels of individual tRNA genes in Caenorhabditis elegans, that eight tryptophan tRNA genes, 100% identical in sequence, are expressed in different tissues and change their expression dynamically. Furthermore, the expression levels of the sup-7 tRNA gene at day 6 were found to predict the animal's lifespan. We discovered that the expression of tRNAs that reside within introns of protein-coding genes is affected by the host gene's promoter. Pairing between specific Pol II genes and the tRNAs that are contained in their introns is most likely adaptive, since a genome-wide analysis revealed that the presence of specific intronic tRNAs within specific orthologous genes is conserved across Caenorhabditis species. PMID:27560950

  4. Transfer RNA: From pioneering crystallographic studies to contemporary tRNA biology.

    Fernández-Millán, Pablo; Schelcher, Cédric; Chihade, Joseph; Masquida, Benoît; Giegé, Philippe; Sauter, Claude

    2016-07-15

    Transfer RNAs (tRNAs) play a key role in protein synthesis as adaptor molecules between messenger RNA and protein sequences on the ribosome. Their discovery in the early sixties provoked a worldwide infatuation with the study of their architecture and their function in the decoding of genetic information. tRNAs are also emblematic molecules in crystallography: the determination of the first tRNA crystal structures represented a milestone in structural biology and tRNAs were for a long period the sole source of information on RNA folding, architecture, and post-transcriptional modifications. Crystallographic data on tRNAs in complex with aminoacyl-tRNA synthetases (aaRSs) also provided the first insight into protein:RNA interactions. Beyond the translation process and the history of structural investigations on tRNA, this review also illustrates the renewal of tRNA biology with the discovery of a growing number of tRNA partners in the cell, the involvement of tRNAs in a variety of regulatory and metabolic pathways, and emerging applications in biotechnology and synthetic biology. PMID:26968773

  5. Fluorescence anisotropy: analysis of tRNA binding to the T box riboswitch antiterminator RNA.

    Zhou, S; Anupam, R; Hines, J V

    2015-01-01

    Fluorescence anisotropy can be utilized in drug discovery screening assays to identify compounds that disrupt medicinally important RNA-macromolecular complexes. Here we describe the application of this technique to monitor tRNA binding to T box riboswitch antiterminator RNA. PMID:25352143

  6. Limited diagnostic value of enzyme analysis in patients with mitochondrial tRNA mutations

    Wibrand, Flemming; Jeppesen, Tina Dysgaard; Frederiksen, Anja L;

    2010-01-01

    We evaluated the diagnostic value of respiratory chain (RC) enzyme analysis of muscle in adult patients with mitochondrial myopathy (MM). RC enzyme activity was measured in muscle biopsies from 39 patients who carry either the 3243A>G mutation, other tRNA point mutations, or single, large...

  7. HUMAN SPEECH EMOTION RECOGNITION

    Maheshwari Selvaraj

    2016-02-01

    Full Text Available Emotions play an extremely important role in human mental life. It is a medium of expression of one’s perspective or one’s mental state to others. Speech Emotion Recognition (SER can be defined as extraction of the emotional state of the speaker from his or her speech signal. There are few universal emotions- including Neutral, Anger, Happiness, Sadness in which any intelligent system with finite computational resources can be trained to identify or synthesize as required. In this work spectral and prosodic features are used for speech emotion recognition because both of these features contain the emotional information. Mel-frequency cepstral coefficients (MFCC is one of the spectral features. Fundamental frequency, loudness, pitch and speech intensity and glottal parameters are the prosodic features which are used to model different emotions. The potential features are extracted from each utterance for the computational mapping between emotions and speech patterns. Pitch can be detected from the selected features, using which gender can be classified. Support Vector Machine (SVM, is used to classify the gender in this work. Radial Basis Function and Back Propagation Network is used to recognize the emotions based on the selected features, and proved that radial basis function produce more accurate results for emotion recognition than the back propagation network.

  8. Mitochondrial tRNA cleavage by tRNA-targeting ribonuclease causes mitochondrial dysfunction observed in mitochondrial disease

    Ogawa, Tetsuhiro, E-mail: atetsu@mail.ecc.u-tokyo.ac.jp; Shimizu, Ayano; Takahashi, Kazutoshi; Hidaka, Makoto; Masaki, Haruhiko, E-mail: amasaki@mail.ecc.u-tokyo.ac.jp

    2014-08-15

    Highlights: • MTS-tagged ribonuclease was translocated successfully to the mitochondrial matrix. • MTS-tagged ribonuclease cleaved mt tRNA and reduced COX activity. • Easy and reproducible method of inducing mt tRNA dysfunction. - Abstract: Mitochondrial DNA (mtDNA) is a genome possessed by mitochondria. Since reactive oxygen species (ROS) are generated during aerobic respiration in mitochondria, mtDNA is commonly exposed to the risk of DNA damage. Mitochondrial disease is caused by mitochondrial dysfunction, and mutations or deletions on mitochondrial tRNA (mt tRNA) genes are often observed in mtDNA of patients with the disease. Hence, the correlation between mt tRNA activity and mitochondrial dysfunction has been assessed. Then, cybrid cells, which are constructed by the fusion of an enucleated cell harboring altered mtDNA with a ρ{sup 0} cell, have long been used for the analysis due to difficulty in mtDNA manipulation. Here, we propose a new method that involves mt tRNA cleavage by a bacterial tRNA-specific ribonuclease. The ribonuclease tagged with a mitochondrial-targeting sequence (MTS) was successfully translocated to the mitochondrial matrix. Additionally, mt tRNA cleavage, which resulted in the decrease of cytochrome c oxidase (COX) activity, was observed.

  9. Mitochondrial tRNA cleavage by tRNA-targeting ribonuclease causes mitochondrial dysfunction observed in mitochondrial disease

    Highlights: • MTS-tagged ribonuclease was translocated successfully to the mitochondrial matrix. • MTS-tagged ribonuclease cleaved mt tRNA and reduced COX activity. • Easy and reproducible method of inducing mt tRNA dysfunction. - Abstract: Mitochondrial DNA (mtDNA) is a genome possessed by mitochondria. Since reactive oxygen species (ROS) are generated during aerobic respiration in mitochondria, mtDNA is commonly exposed to the risk of DNA damage. Mitochondrial disease is caused by mitochondrial dysfunction, and mutations or deletions on mitochondrial tRNA (mt tRNA) genes are often observed in mtDNA of patients with the disease. Hence, the correlation between mt tRNA activity and mitochondrial dysfunction has been assessed. Then, cybrid cells, which are constructed by the fusion of an enucleated cell harboring altered mtDNA with a ρ0 cell, have long been used for the analysis due to difficulty in mtDNA manipulation. Here, we propose a new method that involves mt tRNA cleavage by a bacterial tRNA-specific ribonuclease. The ribonuclease tagged with a mitochondrial-targeting sequence (MTS) was successfully translocated to the mitochondrial matrix. Additionally, mt tRNA cleavage, which resulted in the decrease of cytochrome c oxidase (COX) activity, was observed

  10. Monitoring Protein Synthesis in Living Cells with Fluorescent Labeled tRNA FRET Pairs

    Barhoom, Sima; Farrel, Ian; Dahary, Dvir; Ehrlich, Marcelo; Cooperman, Barry S.; Elroy-Stein, Orna; Smilansky, Zeev

    2013-01-01

    We introduce Protein Synthesis Monitoring (PSM) – a technique to monitor protein synthesis in live cells. In PSM, we transfect cells with tRNA labeled as FRET donors and acceptors. A FRET signal is generated only when a donor- and an acceptor-labeled tRNA come in close contact (< 7nM), as they do on the ribosome during elongation. The intensity of the FRET signal correlates with the number of ribosomes engaged in protein synthesis, providing a real-time, live-cell assay for measuring rates of protein synthesis. PSM can be used to monitor the rate of either total protein synthesis (overall PSM), using bulk tRNAs, or of the synthesis of a specific protein (specific PSM), using specific pairs of tRNA to mark the protein of interest. PSM has sub-micron spatial and sub-second temporal resolutions. Cells continue to live and grow normally, and the synthesized proteins are unchanged since the labeling is on the tRNA itself and not on the amino acid. We have demonstrated specific PSM for monitoring synthesis of a viral protein during viral infection using Isoleucine tRNA, and for monitoring synthesis of collagen during fibrosis in mouse fibroblasts using tRNA-Gly and tRNA-Pro, as collagen is distinguished by many repeats of Gly-Pro dipeptides. We will discuss these results as well as additional applications of PSM in basic research, drug discovery, cell sorting, neurobiology, cancer, biomanufacturing, viral infections, and various protein-synthesis specific diseases.

  11. Accurate Identification of Fear Facial Expressions Predicts Prosocial Behavior

    Marsh, Abigail A.; Kozak, Megan N.; Ambady, Nalini

    2007-01-01

    The fear facial expression is a distress cue that is associated with the provision of help and prosocial behavior. Prior psychiatric studies have found deficits in the recognition of this expression by individuals with antisocial tendencies. However, no prior study has shown accuracy for recognition of fear to predict actual prosocial or antisocial behavior in an experimental setting. In 3 studies, the authors tested the prediction that individuals who recognize fear more accurately will beha...

  12. Co-evolution of tRNA 3′ trailer sequences with 3′ processing enzymes in bacteria

    Li, Zhongwei; Gong, Xin; JOSHI, VEDANG H.; LI, MUXIN

    2005-01-01

    Maturation of the tRNA 3′ terminus is a complicated process in bacteria. Usually, it is initiated by an endonucleolytic cleavage carried out by RNase E and Z in different bacteria. In Escherichia coli, RNase E cleaves AU-rich sequences downstream of tRNA, producing processing intermediates with a few extra residues at the 3′ end; these are then removed by exoribonuclease trimming to generate the mature 3′ end. Here we show that essentially all E. coli tRNA precursors contain a potential RNase...

  13. Document recognition serving people with disabilities

    Fruchterman, James R.

    2007-01-01

    Document recognition advances have improved the lives of people with print disabilities, by providing accessible documents. This invited paper provides perspectives on the author's career progression from document recognition professional to social entrepreneur applying this technology to help people with disabilities. Starting with initial thoughts about optical character recognition in college, it continues with the creation of accurate omnifont character recognition that did not require training. It was difficult to make a reading machine for the blind in a commercial setting, which led to the creation of a nonprofit social enterprise to deliver these devices around the world. This network of people with disabilities scanning books drove the creation of Bookshare.org, an online library of scanned books. Looking forward, the needs for improved document recognition technology to further lower the barriers to reading are discussed. Document recognition professionals should be proud of the positive impact their work has had on some of society's most disadvantaged communities.

  14. Iris Recognition System using canny edge detection for Biometric Identification

    Bhawna Chouhan; Dr.(Mrs) Shailja Shukla

    2011-01-01

    biometric system provides automatic identification of an individual based on a unique feature or characteristic possessed by the individual. Iris recognition is regarded as the most reliable and accurate biometric identification system available. Most commercial iris recognition systems use patented algorithms developed by Daugman, and these algorithms are able to produce perfect recognition rates. Especially it focuses on image segmentation and feature extraction for iris recognition process...

  15. Voice Recognition Technology: Has It Come of Age?

    Zumalt, Joseph R.

    2005-01-01

    Voice recognition software allows computer users to bypass their keyboards and use their voices to enter text. While the library literature is somewhat silent about voice recognition technology, the medical and legal communities have reported some success using it. Voice recognition software was tested for dictation accuracy and usability within an agriculture library at the University of Illinois. Dragon NaturallySpeaking 8.0 was found to be more accurate than speech recognition within Micro...

  16. Accurate Finite Difference Algorithms

    Goodrich, John W.

    1996-01-01

    Two families of finite difference algorithms for computational aeroacoustics are presented and compared. All of the algorithms are single step explicit methods, they have the same order of accuracy in both space and time, with examples up to eleventh order, and they have multidimensional extensions. One of the algorithm families has spectral like high resolution. Propagation with high order and high resolution algorithms can produce accurate results after O(10(exp 6)) periods of propagation with eight grid points per wavelength.

  17. Roles of Trm9- and ALKBH8-like proteins in the formation of modified wobble uridines in Arabidopsis tRNA

    Leihne, Vibeke; Kirpekar, Finn; Vågbø, Cathrine B;

    2011-01-01

    Uridine at the wobble position of tRNA is usually modified, and modification is required for accurate and efficient protein translation. In eukaryotes, wobble uridines are modified into 5-methoxycarbonylmethyluridine (mcm(5)U), 5-carbamoylmethyluridine (ncm(5)U) or derivatives thereof. Here, we...... activity of AtTRM9 depends on either one of two closely related proteins, AtTRM112a and AtTRM112b. Moreover, we demonstrate that AT1G36310, denoted AtALKBH8, is required for hydroxylation of mcm(5)U to (S)-mchm(5)U in tRNA(Gly)(UCC), and has a function similar to the mammalian dioxygenase ALKBH8......(5)U- and mcm(5)Um-containing forms of the selenocysteine-specific tRNA(Sec) in mammals reflects an important regulatory process. The present study reveals a role in for several hitherto uncharacterized Arabidopsis proteins in the formation of modified wobble uridines....

  18. Selection of functional tRNA primers and primer binding site sequences from a retroviral combinatorial library: identification of new functional tRNA primers in murine leukemia virus replication

    Lund, Anders Henrik; Duch, M; Pedersen, F S

    2000-01-01

    Retroviral reverse transcription is initiated from a cellular tRNA molecule and all known exogenous isolates of murine leukemia virus utilise a tRNA(Pro)molecule. While several studies suggest flexibility in murine leukemia virus primer utilisation, studies on human immunodeficiency virus and avian...... retro-viruses have revealed evidence of molecular adapt-ation towards the specific tRNA isoacceptor used as replication primer. In this study, murine leukemia virus tRNA utilisation is investigated by in vivo screening of a retroviral vector combinatorial library with randomised primer binding sites....... While most of the selected primer binding sites are complementary to the 3'-end of tRNA((Pro)), we also retrieved PBS sequences matching four other tRNA molecules and demonstrate that Akv murine leukemia virus vectors may efficiently replicate using tRNA(Arg(CCU)), tRNA(Phe(GAA))and a hitherto unknown...

  19. Acquired prosopagnosia without word recognition deficits.

    Susilo, Tirta; Wright, Victoria; Tree, Jeremy J; Duchaine, Bradley

    2015-01-01

    It has long been suggested that face recognition relies on specialized mechanisms that are not involved in visual recognition of other object categories, including those that require expert, fine-grained discrimination at the exemplar level such as written words. But according to the recently proposed many-to-many theory of object recognition (MTMT), visual recognition of faces and words are carried out by common mechanisms [Behrmann, M., & Plaut, D. C. ( 2013 ). Distributed circuits, not circumscribed centers, mediate visual recognition. Trends in Cognitive Sciences, 17, 210-219]. MTMT acknowledges that face and word recognition are lateralized, but posits that the mechanisms that predominantly carry out face recognition still contribute to word recognition and vice versa. MTMT makes a key prediction, namely that acquired prosopagnosics should exhibit some measure of word recognition deficits. We tested this prediction by assessing written word recognition in five acquired prosopagnosic patients. Four patients had lesions limited to the right hemisphere while one had bilateral lesions with more pronounced lesions in the right hemisphere. The patients completed a total of seven word recognition tasks: two lexical decision tasks and five reading aloud tasks totalling more than 1200 trials. The performances of the four older patients (3 female, age range 50-64 years) were compared to those of 12 older controls (8 female, age range 56-66 years), while the performances of the younger prosopagnosic (male, 31 years) were compared to those of 14 younger controls (9 female, age range 20-33 years). We analysed all results at the single-patient level using Crawford's t-test. Across seven tasks, four prosopagnosics performed as quickly and accurately as controls. Our results demonstrate that acquired prosopagnosia can exist without word recognition deficits. These findings are inconsistent with a key prediction of MTMT. They instead support the hypothesis that face

  20. An RNA-binding complex involved in ribosome biogenesis contains a protein with homology to tRNA CCA-adding enzyme.

    Jinzhong Lin

    2013-10-01

    Full Text Available A multitude of proteins and small nucleolar RNAs transiently associate with eukaryotic ribosomal RNAs to direct their modification and processing and the assembly of ribosomal proteins. Utp22 and Rrp7, two interacting proteins with no recognizable domain, are components of the 90S preribosome or the small subunit processome that conducts early processing of 18S rRNA. Here, we determine the cocrystal structure of Utp22 and Rrp7 complex at 1.97 Å resolution and the NMR structure of a C-terminal fragment of Rrp7, which is not visible in the crystal structure. The structure reveals that Utp22 surprisingly resembles a dimeric class I tRNA CCA-adding enzyme yet with degenerate active sites, raising an interesting evolutionary connection between tRNA and rRNA processing machineries. Rrp7 binds extensively to Utp22 using a deviant RNA recognition motif and an extended linker. Functional sites on the two proteins were identified by structure-based mutagenesis in yeast. We show that Rrp7 contains a flexible RNA-binding C-terminal tail that is essential for association with preribosomes. RNA-protein crosslinking shows that Rrp7 binds at the central domain of 18S rRNA and shares a neighborhood with two processing H/ACA snoRNAs snR30 and snR10. Depletion of snR30 prevents the stable assembly of Rrp7 into preribosomes. Our results provide insight into the evolutionary origin and functional context of Utp22 and Rrp7.

  1. Invariant Image Watermarking Using Accurate Zernike Moments

    Ismail A. Ismail

    2010-01-01

    Full Text Available problem statement: Digital image watermarking is the most popular method for image authentication, copyright protection and content description. Zernike moments are the most widely used moments in image processing and pattern recognition. The magnitudes of Zernike moments are rotation invariant so they can be used just as a watermark signal or be further modified to carry embedded data. The computed Zernike moments in Cartesian coordinate are not accurate due to geometrical and numerical error. Approach: In this study, we employed a robust image-watermarking algorithm using accurate Zernike moments. These moments are computed in polar coordinate, where both approximation and geometric errors are removed. Accurate Zernike moments are used in image watermarking and proved to be robust against different kind of geometric attacks. The performance of the proposed algorithm is evaluated using standard images. Results: Experimental results show that, accurate Zernike moments achieve higher degree of robustness than those approximated ones against rotation, scaling, flipping, shearing and affine transformation. Conclusion: By computing accurate Zernike moments, the embedded bits watermark can be extracted at low error rate.

  2. Mode of Action of RNase BN/RNase Z on tRNA Precursors: RNase BN DOES NOT REMOVE THE CCA SEQUENCE FROM tRNA*

    Dutta, Tanmay; Deutscher, Murray P.

    2010-01-01

    RNase BN, the Escherichia coli homolog of RNase Z, was previously shown to act as both a distributive exoribonuclease and an endoribonuclease on model RNA substrates and to be inhibited by the presence of a 3′-terminal CCA sequence. Here, we examined the mode of action of RNase BN on bacteriophage and bacterial tRNA precursors, particularly in light of a recent report suggesting that RNase BN removes CCA sequences (Takaku, H., and Nashimoto, M. (2008) Genes Cells 13, 1087–1097). We show that ...

  3. Recognition intent and visual word recognition.

    Wang, Man-Ying; Ching, Chi-Le

    2009-03-01

    This study adopted a change detection task to investigate whether and how recognition intent affects the construction of orthographic representation in visual word recognition. Chinese readers (Experiment 1-1) and nonreaders (Experiment 1-2) detected color changes in radical components of Chinese characters. Explicit recognition demand was imposed in Experiment 2 by an additional recognition task. When the recognition was implicit, a bias favoring the radical location informative of character identity was found in Chinese readers (Experiment 1-1), but not nonreaders (Experiment 1-2). With explicit recognition demands, the effect of radical location interacted with radical function and word frequency (Experiment 2). An estimate of identification performance under implicit recognition was derived in Experiment 3. These findings reflect the joint influence of recognition intent and orthographic regularity in shaping readers' orthographic representation. The implication for the role of visual attention in word recognition was also discussed. PMID:19036609

  4. Feature quality-based multimodal unconstrained eye recognition

    Zhou, Zhi; Du, Eliza Y.; Lin, Yong; Thomas, N. Luke; Belcher, Craig; Delp, Edward J.

    2013-05-01

    Iris recognition has been tested to the most accurate biometrics using high resolution near infrared images. However, it does not work well under visible wavelength illumination. Sclera recognition, however, has been shown to achieve reasonable recognition accuracy under visible wavelengths. Combining iris and sclera recognition together can achieve better recognition accuracy. However, image quality can significantly affect the recognition accuracy. Moreover, in unconstrained situations, the acquired eye images may not be frontally facing. In this research, we proposed a feature quality-based multimodal unconstrained eye recognition method that combine the respective strengths of iris recognition and sclera recognition for human identification and can work with frontal and off-angle eye images. The research results show that the proposed method is very promising.

  5. Transfer-messenger RNA and SmpB mediate bacteriostasis in Escherichia coli cells against tRNA cleavage.

    Sakai, Fusako; Sugita, Risa; Chang, Jung-Wei; Ogawa, Tetsuhiro; Tsumadori, Natsuko; Takahashi, Kazutoshi; Hidaka, Makoto; Masaki, Haruhiko

    2015-10-01

    RNAs, such as mRNA, rRNA and tRNA, are essential macromolecules for cell survival and maintenance. Any perturbation of these molecules, such as by degradation or mutation, can be toxic to cells and may occasionally induce cell death. Therefore, cells have mechanisms known as quality control systems to eliminate abnormal RNAs. Although tRNA is a stable molecule, the anticodon loop is quite susceptible to tRNA-targeting RNases such as colicin E5 and colicin D. However, the mechanism underlying cellular reaction to tRNA cleavage remains unclear. It had long been believed that tRNA cleavage by colicins E5 and D promptly induces cell death because colony formation of the sensitive cells is severely reduced; this indicates that cells do not resist the tRNA cleavage. Here, we show that Escherichia coli cells enter a bacteriostatic state against the tRNA cleavage of colicins D and E5. The bacteriostasis requires small protein B (SmpB) and transfer-messenger RNA (tmRNA), which are known to mediate trans-translation. Furthermore, another type of colicin, colicin E3 cleaving rRNA, immediately reduces the viability of sensitive cells. Moreover, nascent peptide degradation has an additive effect on bacteriostasis. Considering the recent observation that tRNA cleavage may be used as a means of cell-to-cell communication, tRNA cleavage could be used by bacteria not only to dominate other bacteria living in the same niche, but also to regulate growth of their own or other cells. PMID:26199088

  6. Evidence that the mitochondrial leucyl tRNA synthetase (LARS2) gene represents a novel type 2 diabetes susceptibility gene

    hart, Leen M; Hansen, Torben; Rietveld, Ingrid;

    2005-01-01

    Previously, we have shown that a mutation in the mitochondrial DNA-encoded tRNA(Leu(UUR)) gene is associated with type 2 diabetes. One of the consequences of this mutation is a reduced aminoacylation of tRNA(Leu(UUR)). In this study, we have examined whether variants in the leucyl tRNA synthetase...... first report of association between an aminoacyl tRNA synthetase gene and disease. Our results further highlight the important role of mitochondria in glucose homeostasis....

  7. tRNADB-CE: tRNA gene database well-timed in the era of big sequence data

    Takashi eAbe

    2014-05-01

    Full Text Available The tRNA Gene Data Base Curated by Experts tRNADB-CE (http://trna.ie.niigata-u.ac.jp was constructed by analyzing 1,966 complete and 5,272 draft genomes of prokaryotes, 171 viruses’, 121 chloroplasts’, and 12 eukaryotes’ genomes plus fragment sequences obtained by metagenome studies of environmental samples. 595,115 tRNA genes in total, and thus two times of genes compiled previously, have been registered, for which sequence, clover-leaf structure, and results of sequence-similarity and oligonucleotide-pattern searches can be browsed. To provide collective knowledge with help from experts in tRNA researches, we added a column for enregistering comments to each tRNA. By grouping bacterial tRNAs with an identical sequence, we have found high phylogenetic preservation of tRNA sequences, especially at the phylum level. Since many species-unknown tRNAs from metagenomic sequences have sequences identical to those found in species-known prokaryotes, the identical sequence group can provide phylogenetic markers to investigate the microbial community in an environmental ecosystem. This strategy can be applied to a huge amount of short sequences obtained from next-generation sequencers, as showing that tRNADB-CE is a well-timed database in the era of big sequence data. It is also discussed that BLSOM with oligonucleotide composition is useful for efficient knowledge discovery from big sequence data.

  8. tRNA modifying enzymes, NSUN2 and METTL1, determine sensitivity to 5-fluorouracil in HeLa cells.

    Mayumi Okamoto

    2014-09-01

    Full Text Available Nonessential tRNA modifications by methyltransferases are evolutionarily conserved and have been reported to stabilize mature tRNA molecules and prevent rapid tRNA decay (RTD. The tRNA modifying enzymes, NSUN2 and METTL1, are mammalian orthologs of yeast Trm4 and Trm8, which are required for protecting tRNA against RTD. A simultaneous overexpression of NSUN2 and METTL1 is widely observed among human cancers suggesting that targeting of both proteins provides a novel powerful strategy for cancer chemotherapy. Here, we show that combined knockdown of NSUN2 and METTL1 in HeLa cells drastically potentiate sensitivity of cells to 5-fluorouracil (5-FU whereas heat stress of cells revealed no effects. Since NSUN2 and METTL1 are phosphorylated by Aurora-B and Akt, respectively, and their tRNA modifying activities are suppressed by phosphorylation, overexpression of constitutively dephosphorylated forms of both methyltransferases is able to suppress 5-FU sensitivity. Thus, NSUN2 and METTL1 are implicated in 5-FU sensitivity in HeLa cells. Interfering with methylation of tRNAs might provide a promising rationale to improve 5-FU chemotherapy of cancer.

  9. RNA fragments mimicking tRNA analogs interact with cytochrome c.

    Pawlowska, Roza; Janicka, Magdalena; Jedrzejczyk, Dominika; Chworos, Arkadiusz

    2016-04-01

    In times, when drug seeking assays focus on the natural molecular triggers and their analogs, a deeper insight into molecular mechanisms governing the initial step of intrinsic apoptosis (cytochrome c release) is essential to suppress the immortality of pathologically changed cells. In this study, we examined RNA molecules mimicking mitochondrial tRNAs interacting with cytochrome c and possibly affecting its cellular function. tRNA analogs were designed and synthesized prior to the conformational analysis and gel assays clearly stating the nucleic acid-protein complex formation. The circular dichroism spectroscopic (CD) and microscale thermophoresis examination revealed the structural and conformational differences between four tRNA analogs in their interactions with cytochrome c. Obtained CD spectra and gel studies resulted in the complex ratio estimation and conclusion that not only the complex formation may be preferential towards specific tRNAs present in the cell, but nucleobase modifications are not essential for such interaction. PMID:26892782

  10. let-65 is cytoplasmic methionyl tRNA synthetase in C. elegans

    Maha Z. Alriyami

    2014-12-01

    Full Text Available Cytoplasmic methionyl tRNA synthetase (MetRS is one of more than 20 cytoplasmic aminoacyl tRNA synthetase enzymes (ARS. This family of enzymes catalyzes a process fundamental for protein translation. Using a combination of genetic mapping, oligonucleotide array comparative genomic hybridization, and phenotypic correlation, we show that mutations in the essential gene, let-65, reside within the predicted Caenorhabditis elegans homologue of MetRS, which we have named mars-1. We demonstrate that the lethality associated with alleles of let-65 is fully rescued by a transgenic array that spans the mars-1 genomic region. Furthermore, sequence analysis reveals that six let-65 alleles lead to the alteration of highly conserved amino acids.

  11. The structural basis of tRNA mimicry and conformational plasticity by a viral RNA

    Colussi, Timothy M.; Costantino, David A.; Hammond, John A.; Ruehle, Grant M.; Nix, Jay C.; Kieft, Jeffrey S.

    2014-01-01

    RNA is arguably the most functionally diverse biological macromolecule. In some cases a single discrete RNA sequence performs multiple roles and this can be conferred by a complex three-dimensional structure. This multifunctionality can also be driven or enhanced by the ability of a given RNA to assume different conformational (and therefore functional) states1. Despite its biological importance, a detailed structural understanding of the paradigm of RNA structure-driven multifunctionality is lacking. Examples to address this gap are found in single-stranded positive-sense RNA viruses, a prototype being the tRNA-like structure (TLS) found at the 3′ end of the Turnip Yellow Mosaic Virus (TYMV). This TLS not only acts like a tRNA to drive aminoacylation of the viral genomic RNA (gRNA)2-4, but also interacts with other structures in the gRNA's 3′ untranslated region5, contains the promoter for negative strand synthesis, and influences several infection-critical processes6. This TLS RNA can provide a glimpse into the structural basis of RNA multifunctionality and plasticity, but for decades its high-resolution structure has remained elusive. Here, we present the crystal structure of the complete TYMV TLS to 2.0 Å resolution. Globally, the RNA adopts a shape that mimics tRNA, but it uses a very different set of intramolecular interactions to achieve this shape. These interactions also allow the TLS to readily switch conformations. In addition, the TLS structure is ‘two-faced’: one ‘face’ closely mimics tRNA and drives aminoacylation, the other ‘face’ diverges from tRNA and enables additional functionality. The TLS is thus structured to perform several functions and interact with diverse binding partners, and we demonstrate its ability to specifically bind to ribosomes. PMID:24909993

  12. Mitochondrial tRNA import in Trypanosoma brucei is independent of thiolation and the Rieske protein

    Paris, Zdeněk; RUBIO, M. A. T.; Lukeš, Julius; Alfonzo, J. D.

    2009-01-01

    Roč. 15, č. 7 (2009), s. 1398-1406. ISSN 1355-8382 R&D Projects: GA ČR GA204/06/1558; GA MŠk LC07032; GA MŠk 2B06129 Institutional research plan: CEZ:AV0Z60220518 Keywords : T. brucei * tRNA import * 2-thiolation * RIC * Rieske * Fe-S cluster Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 5.198, year: 2009

  13. RNA Polymerase III Output Is Functionally Linked to tRNA Dimethyl-G26 Modification.

    Aneeshkumar G Arimbasseri

    2015-12-01

    Full Text Available Control of the differential abundance or activity of tRNAs can be important determinants of gene regulation. RNA polymerase (RNAP III synthesizes all tRNAs in eukaryotes and it derepression is associated with cancer. Maf1 is a conserved general repressor of RNAP III under the control of the target of rapamycin (TOR that acts to integrate transcriptional output and protein synthetic demand toward metabolic economy. Studies in budding yeast have indicated that the global tRNA gene activation that occurs with derepression of RNAP III via maf1-deletion is accompanied by a paradoxical loss of tRNA-mediated nonsense suppressor activity, manifested as an antisuppression phenotype, by an unknown mechanism. We show that maf1-antisuppression also occurs in the fission yeast S. pombe amidst general activation of RNAP III. We used tRNA-HydroSeq to document that little changes occurred in the relative levels of different tRNAs in maf1Δ cells. By contrast, the efficiency of N2,N2-dimethyl G26 (m(22G26 modification on certain tRNAs was decreased in response to maf1-deletion and associated with antisuppression, and was validated by other methods. Over-expression of Trm1, which produces m(22G26, reversed maf1-antisuppression. A model that emerges is that competition by increased tRNA levels in maf1Δ cells leads to m(22G26 hypomodification due to limiting Trm1, reducing the activity of suppressor-tRNASerUCA and accounting for antisuppression. Consistent with this, we show that RNAP III mutations associated with hypomyelinating leukodystrophy decrease tRNA transcription, increase m(22G26 efficiency and reverse antisuppression. Extending this more broadly, we show that a decrease in tRNA synthesis by treatment with rapamycin leads to increased m(22G26 modification and that this response is conserved among highly divergent yeasts and human cells.

  14. Controlling translation elongation efficiency: tRNA regulation of ribosome flux on the mRNA.

    Gorgoni, Barbara; Marshall, Elizabeth; McFarland, Matthew R; Romano, M Carmen; Stansfield, Ian

    2014-02-01

    Gene expression can be regulated by a wide variety of mechanisms. One example concerns the growing body of evidence that the protein-production rate can be regulated at the level of translation elongation by controlling ribosome flux across the mRNA. Variations in the abundance of tRNA molecules cause different rates of translation of their counterpart codons. This, in turn, produces a variable landscape of translational rate across each and every mRNA, with the dynamic formation and deformation of ribosomal queues being regulated by both tRNA availability and the rates of translation initiation and termination. In the present article, a range of examples of tRNA control of gene expression are reviewed, and the use of mathematical modelling to develop a predictive understanding of the consequences of that regulation is discussed and explained. These findings encourage a view that predicting the protein-synthesis rate of each mRNA requires a holistic understanding of how each stage of translation, including elongation, contributes to the overall protein-production rate. PMID:24450645

  15. Global analysis of transcriptionally engaged yeast RNA polymerase III reveals extended tRNA transcripts.

    Turowski, Tomasz W; Leśniewska, Ewa; Delan-Forino, Clementine; Sayou, Camille; Boguta, Magdalena; Tollervey, David

    2016-07-01

    RNA polymerase III (RNAPIII) synthesizes a range of highly abundant small stable RNAs, principally pre-tRNAs. Here we report the genome-wide analysis of nascent transcripts attached to RNAPIII under permissive and restrictive growth conditions. This revealed strikingly uneven polymerase distributions across transcription units, generally with a predominant 5' peak. This peak was higher for more heavily transcribed genes, suggesting that initiation site clearance is rate-limiting during RNAPIII transcription. Down-regulation of RNAPIII transcription under stress conditions was found to be uneven; a subset of tRNA genes showed low response to nutrient shift or loss of the major transcription regulator Maf1, suggesting potential "housekeeping" roles. Many tRNA genes were found to generate long, 3'-extended forms due to read-through of the canonical poly(U) terminators. The degree of read-through was anti-correlated with the density of U-residues in the nascent tRNA, and multiple, functional terminators can be located far downstream. The steady-state levels of 3'-extended pre-tRNA transcripts are low, apparently due to targeting by the nuclear surveillance machinery, especially the RNA binding protein Nab2, cofactors for the nuclear exosome, and the 5'-exonuclease Rat1. PMID:27206856

  16. Mitochondrial genomes of praying mantises (Dictyoptera, Mantodea): rearrangement, duplication, and reassignment of tRNA genes.

    Ye, Fei; Lan, Xu-E; Zhu, Wen-Bo; You, Ping

    2016-01-01

    Insect mitochondrial genomes (mitogenomes) contain a conserved set of 37 genes for an extensive diversity of lineages. Previously reported dictyopteran mitogenomes share this conserved mitochondrial gene arrangement, although surprisingly little is known about the mitogenome of Mantodea. We sequenced eight mantodean mitogenomes including the first representatives of two families: Hymenopodidae and Liturgusidae. Only two of these genomes retain the typical insect gene arrangement. In three Liturgusidae species, the trnM genes have translocated. Four species of mantis (Creobroter gemmata, Mantis religiosa, Statilia sp., and Theopompa sp.-HN) have multiple identical tandem duplication of trnR, and Statilia sp. additionally includes five extra duplicate trnW. These extra trnR and trnW in Statilia sp. are erratically arranged and form another novel gene order. Interestingly, the extra trnW is converted from trnR by the process of point mutation at anticodon, which is the first case of tRNA reassignment for an insect. Furthermore, no significant differences were observed amongst mantodean mitogenomes with variable copies of tRNA according to comparative analysis of codon usage. Combined with phylogenetic analysis, the characteristics of tRNA only possess limited phylogenetic information in this research. Nevertheless, these features of gene rearrangement, duplication, and reassignment provide valuable information toward understanding mitogenome evolution in insects. PMID:27157299

  17. Chemical recognition software

    Wagner, J.S.; Trahan, M.W.; Nelson, W.E.; Hargis, P.J. Jr.; Tisone, G.C.

    1994-12-01

    We have developed a capability to make real time concentration measurements of individual chemicals in a complex mixture using a multispectral laser remote sensing system. Our chemical recognition and analysis software consists of three parts: (1) a rigorous multivariate analysis package for quantitative concentration and uncertainty estimates, (2) a genetic optimizer which customizes and tailors the multivariate algorithm for a particular application, and (3) an intelligent neural net chemical filter which pre-selects from the chemical database to find the appropriate candidate chemicals for quantitative analyses by the multivariate algorithms, as well as providing a quick-look concentration estimate and consistency check. Detailed simulations using both laboratory fluorescence data and computer synthesized spectra indicate that our software can make accurate concentration estimates from complex multicomponent mixtures. even when the mixture is noisy and contaminated with unknowns.

  18. Chemical recognition software

    Wagner, J.S.; Trahan, M.W.; Nelson, W.E.; Hargis, P.H. Jr.; Tisone, G.C.

    1994-06-01

    We have developed a capability to make real time concentration measurements of individual chemicals in a complex mixture using a multispectral laser remote sensing system. Our chemical recognition and analysis software consists of three parts: (1) a rigorous multivariate analysis package for quantitative concentration and uncertainty estimates, (2) a genetic optimizer which customizes and tailors the multivariate algorithm for a particular application, and (3) an intelligent neural net chemical filter which pre-selects from the chemical database to find the appropriate candidate chemicals for quantitative analyses by the multivariate algorithms, as well as providing a quick-look concentration estimate and consistency check. Detailed simulations using both laboratory fluorescence data and computer synthesized spectra indicate that our software can make accurate concentration estimates from complex multicomponent mixtures, even when the mixture is noisy and contaminated with unknowns.

  19. Accurate pose estimation for forensic identification

    Merckx, Gert; Hermans, Jeroen; Vandermeulen, Dirk

    2010-04-01

    In forensic authentication, one aims to identify the perpetrator among a series of suspects or distractors. A fundamental problem in any recognition system that aims for identification of subjects in a natural scene is the lack of constrains on viewing and imaging conditions. In forensic applications, identification proves even more challenging, since most surveillance footage is of abysmal quality. In this context, robust methods for pose estimation are paramount. In this paper we will therefore present a new pose estimation strategy for very low quality footage. Our approach uses 3D-2D registration of a textured 3D face model with the surveillance image to obtain accurate far field pose alignment. Starting from an inaccurate initial estimate, the technique uses novel similarity measures based on the monogenic signal to guide a pose optimization process. We will illustrate the descriptive strength of the introduced similarity measures by using them directly as a recognition metric. Through validation, using both real and synthetic surveillance footage, our pose estimation method is shown to be accurate, and robust to lighting changes and image degradation.

  20. Recognition of tennis strokes using key postures

    Connaghan, Damien; Ó Conaire, Ciarán; Kelly, Philip; O''Connor, Noel E.

    2010-01-01

    In this paper we describe an approach for automatic recognition of tennis strokes using a single low cost camera. Professional tennis is played at high speed so the ability to classify tennis strokes on camera is hindered by the rapid movement of the players. We have developed an accurate recognition system which can automatically index tennis strokes from video footage. We aim to evolve this system so that meta data, such as time codes and descriptions of the strokes played, can be automatic...

  1. FACE RECOGNITION BASED ON CUCKOO SEARCH ALGORITHM

    VIPINKUMAR TIWARI

    2012-01-01

    Feature Selection is a optimization technique used in face recognition technology. Feature selection removes the irrelevant, noisy and redundant data thus leading to the more accurate recognition of face from the database.Cuckko Algorithm is one of the recent optimization algorithm in the league of nature based algorithm. Its optimization results are better than the PSO and ACO optimization algorithms. The proposal of applying the Cuckoo algorithm for feature selection in the process of face ...

  2. FACE RECOGNITION BASED ON CUCKOO SEARCH ALGORITHM

    VIPINKUMAR TIWARI

    2012-07-01

    Full Text Available Feature Selection is a optimization technique used in face recognition technology. Feature selection removes the irrelevant, noisy and redundant data thus leading to the more accurate recognition of face from the database.Cuckko Algorithm is one of the recent optimization algorithm in the league of nature based algorithm. Its optimization results are better than the PSO and ACO optimization algorithms. The proposal of applying the Cuckoo algorithm for feature selection in the process of face recognition is presented in this paper.

  3. Speaker recognition by voice

    Kamarauskas, Juozas

    2009-01-01

    Questions of speaker’s recognition by voice are investigated in this dissertation. Speaker recognition systems, their evolution, problems of recognition, systems of features, questions of speaker modeling and matching used in text-independent and text-dependent speaker recognition are considered too. The text-independent speaker recognition system has been developed during this work. The Gaussian mixture model approach was used for speaker modeling and pattern matching. The automatic m...

  4. A human tRNA methyltransferase 9-like protein prevents tumour growth by regulating LIN9 and HIF1-α.

    Begley, Ulrike; Sosa, Maria Soledad; Avivar-Valderas, Alvaro; Patil, Ashish; Endres, Lauren; Estrada, Yeriel; Chan, Clement T Y; Su, Dan; Dedon, Peter C; Aguirre-Ghiso, Julio A; Begley, Thomas

    2013-03-01

    Emerging evidence points to aberrant regulation of translation as a driver of cell transformation in cancer. Given the direct control of translation by tRNA modifications, tRNA modifying enzymes may function as regulators of cancer progression. Here, we show that a tRNA methyltransferase 9-like (hTRM9L/KIAA1456) mRNA is down-regulated in breast, bladder, colorectal, cervix and testicular carcinomas. In the aggressive SW620 and HCT116 colon carcinoma cell lines, hTRM9L is silenced and its re-expression and methyltransferase activity dramatically suppressed tumour growth in vivo. This growth inhibition was linked to decreased proliferation, senescence-like G0/G1-arrest and up-regulation of the RB interacting protein LIN9. Additionally, SW620 cells re-expressing hTRM9L did not respond to hypoxia via HIF1-α-dependent induction of GLUT1. Importantly, hTRM9L-negative tumours were highly sensitive to aminoglycoside antibiotics and this was associated with altered tRNA modification levels compared to antibiotic resistant hTRM9L-expressing SW620 cells. Our study links hTRM9L and tRNA modifications to inhibition of tumour growth via LIN9 and HIF1-α-dependent mechanisms. It also suggests that aminoglycoside antibiotics may be useful to treat hTRM9L-deficient tumours. PMID:23381944

  5. Allosteric vs. spontaneous exit-site (E-site) tRNA dissociation early in protein synthesis.

    Chen, Chunlai; Stevens, Benjamin; Kaur, Jaskiran; Smilansky, Zeev; Cooperman, Barry S; Goldman, Yale E

    2011-10-11

    During protein synthesis, deacylated transfer RNAs leave the ribosome via an exit (E) site after mRNA translocation. How the ribosome regulates tRNA dissociation and whether functional linkages between the aminoacyl (A) and E sites modulate the dynamics of protein synthesis have long been debated. Using single molecule fluorescence resonance energy transfer experiments, we find that, during early cycles of protein elongation, tRNAs are often held in the E site until being allosterically released when the next aminoacyl tRNA binds to the A site. This process is regulated by the length and sequence of the nascent peptide and by the conformational state, detected by tRNA proximity, prior to translocation. In later cycles, E-site tRNA dissociates spontaneously. Our results suggest that the distribution of pretranslocation tRNA states and posttranslocation pathways are correlated within each elongation cycle via communication between distant subdomains in the ribosome, but that this correlation between elongation cycle intermediates does not persist into succeeding cycles. PMID:21969541

  6. Face Recognition Using Local Quantized Patterns and Gabor Filters

    Khryashchev, V.; Priorov, A.; Stepanova, O.; Nikitin, A.

    2015-05-01

    The problem of face recognition in a natural or artificial environment has received a great deal of researchers' attention over the last few years. A lot of methods for accurate face recognition have been proposed. Nevertheless, these methods often fail to accurately recognize the person in difficult scenarios, e.g. low resolution, low contrast, pose variations, etc. We therefore propose an approach for accurate and robust face recognition by using local quantized patterns and Gabor filters. The estimation of the eye centers is used as a preprocessing stage. The evaluation of our algorithm on different samples from a standardized FERET database shows that our method is invariant to the general variations of lighting, expression, occlusion and aging. The proposed approach allows about 20% correct recognition accuracy increase compared with the known face recognition algorithms from the OpenCV library. The additional use of Gabor filters can significantly improve the robustness to changes in lighting conditions.

  7. The role of mitochondrial tRNA variants in female breast cancer.

    Meng, Xian-Li; Meng, Hua; Zhang, Wei; Qin, Yu-Hua; Zhao, Ning-Min

    2016-09-01

    Mitochondrial tRNA (Mt-tRNA) variants have been found to be involved in the carcinogenesis of breast cancer. These tRNAs, which played critical roles in mitochondrial protein synthesis, were important regulators in tumorigenesis. Distinguishing the polymorphisms or mutations in mt-tRNA genes was still puzzling for the clinicians and geneticists when confronted with the breast cancer. In this study, we performed a detailed analysis of recently reported mutations in mt-tRNA genes and further discussed the relationship between these variants and breast cancer. PMID:25703847

  8. A fungal anticodon nuclease ribotoxin exploits a secondary cleavage site to evade tRNA repair

    Meineke, Birthe; Kast, Alene; Schwer, Beate; Meinhardt, Friedhelm; Shuman, Stewart; Klassen, Roland

    2012-01-01

    The PaOrf2 and γ-toxin subunits of Pichia acaciae toxin (PaT) and Kluyveromyces lactis zymocin are tRNA anticodon nucleases encoded by cytoplasmic DNA plasmids. Toxicity can be recapitulated conveniently by induced intracellular expression of PaOrf2 or γ-toxin in Saccharomyces cerevisiae. Mutational analysis of γ-toxin has identified amino acids required for ribotoxicity in vivo and RNA transesterification in vitro. Here, the authors report that PaOrf2 residues Glu9 and His287 (putative count...

  9. Selection of tRNA charging quality control mechanisms that increase mistranslation of the genetic code

    Yadavalli, Srujana S; Ibba, Michael

    2013-01-01

    Mistranslation can follow two events during protein synthesis: production of non-cognate amino acid:transfer RNA (tRNA) pairs by aminoacyl-tRNA synthetases (aaRSs) and inaccurate selection of aminoacyl-tRNAs by the ribosome. Many aaRSs actively edit non-cognate amino acids, but editing mechanisms...... are not evolutionarily conserved, and their physiological significance remains unclear. To address the connection between aaRSs and mistranslation, the evolutionary divergence of tyrosine editing by phenylalanyl-tRNA synthetase (PheRS) was used as a model. Certain PheRSs are naturally error prone...

  10. Selective charging of tRNA isoacceptors induced by amino-acid starvation

    Dittmar, K. A.; Sørensen, Michael Askvad; Elf, J.;

    2005-01-01

    -acid starvation results in 'selective charging' where the charging levels of some tRNA isoacceptors will be low and those of others will remain high. Here, we developed a microarray for the analysis of charged fractions of tRNAs and measured charging for all Escherichia coli tRNAs before and during leucine......, threonine or arginine starvation. Before starvation, most tRNAs were fully charged. During starvation, the isoacceptors in the leucine, threonine or arginine families showed selective charging when cells were starved for their cognate amino acid, directly confirming the theoretical prediction. Codons read...

  11. Aquifex aeolicus tRNA (N2,N2-Guanine)-dimethyltransferase (Trm1) Catalyzes Transfer of Methyl Groups Not Only to Guanine 26 but Also to Guanine 27 in tRNA*

    Awai, Takako; Kimura, Satoshi; Tomikawa, Chie; Ochi, Anna; Ihsanawati,; Bessho, Yoshitaka; Yokoyama, Shigeyuki; Ohno, Satoshi; Nishikawa, Kazuya; Yokogawa, Takashi; Suzuki, Tsutomu; Hori, Hiroyuki

    2009-01-01

    Transfer RNA (N2,N2-guanine)-dimethyltransferase (Trm1) catalyzes N2,N2-dimethylguanine formation at position 26 (m22G26) in tRNA. In the reaction, N2-guanine at position 26 (m2G26) is generated as an intermediate. The trm1 genes are found only in archaea and eukaryotes, although it has been reported that Aquifex aeolicus, a hyper-thermophilic eubacterium, has a putative trm1 gene. To confirm whether A. aeolicus Trm1 has tRNA methyltransferase activity, we purified recombinant Trm1 protein. I...

  12. Anticodon Modifications in the tRNA Set of LUCA and the Fundamental Regularity in the Standard Genetic Code

    van der Gulik, Peter T. S.; Hoff, Wouter D.

    2016-01-01

    Based on (i) an analysis of the regularities in the standard genetic code and (ii) comparative genomics of the anticodon modification machinery in the three branches of life, we derive the tRNA set and its anticodon modifications as it was present in LUCA. Previously we proposed that an early ancestor of LUCA contained a set of 23 tRNAs with unmodified anticodons that was capable of translating all 20 amino acids while reading 55 of the 61 sense codons of the standard genetic code (SGC). Here we use biochemical and genomic evidence to derive that LUCA contained a set of 44 or 45 tRNAs containing 2 or 3 modifications while reading 59 or 60 of the 61 sense codons. Subsequent tRNA modifications occurred independently in the Bacteria and Eucarya, while the Archaea have remained quite close to the tRNA set as it was present in LUCA. PMID:27454314

  13. The ribosome triggers the stringent response by RelA via a highly distorted tRNA.

    Agirrezabala, Xabier; Fernández, Israel S; Kelley, Ann C; Cartón, David Gil; Ramakrishnan, Venki; Valle, Mikel

    2013-09-01

    The bacterial stringent response links nutrient starvation with the transcriptional control of genes. This process is initiated by the stringent factor RelA, which senses the presence of deacylated tRNA in the ribosome as a symptom of amino-acid starvation to synthesize the alarmone (p)ppGpp. Here we report a cryo-EM study of RelA bound to ribosomes bearing cognate, deacylated tRNA in the A-site. The data show that RelA on the ribosome stabilizes an unusual distorted form of the tRNA, with the acceptor arm making contact with RelA and far from its normal location in the peptidyl transferase centre. PMID:23877429

  14. La adaptación a la deficiencia de zinc en cianobacterias. Papel de treonil-trna sintetasas duplicadas

    Rubio Gómez, Miguel Ángel

    2016-01-01

    Falta palabras claves Las aminoacil tRNA sintetasas (aaRSs) son las enzimas que catalizan la carga del aminoácido en el tRNA y son las responsables de mantener la fidelidad en la traducción del código genético. Las aaRSs son componentes esenciales de la síntesis proteica y son ubicuas en todos los dominios de la vida (Ibba y Sol, 2000; Perona y Hadd, 2012). La cianobacteria filamentosa Anabaena sp.PCC 7120 contiene dos genes de treonil tRNA sintetasa, alr0335(thrS1) y all4723 (thrS2), ...

  15. Crosslinking of tRNA containing a long extra arm to elongation factor Tu by trans-diamminedichloroplatinum(II)

    Rasmussen, Nils-Jørgen; Wikman, Friedrik; Clark, Brian F. C.

    1990-01-01

    A tRNA containing a long extra arm, namely E. coli tRNA1Leu has been crosslinked to elongation factor Tu, with the crosslinking reagent trans-diamminedichloroplatinum(II). The nucleotide involved in the crosslinking was identified to be a guanosine in the variable region at position 47F or 47G....

  16. Keep it Accurate and Diverse

    Ali Bagheri, Mohammad; Gao, Qigang; Guerrero, Sergio Escalera;

    2015-01-01

    The performance of different action recognition tech- niques has recently been studied by several computer vision researchers. However, the potential improvement in classi- fication through classifier fusion by ensemble-based meth- ods has remained unattended. In this work, we evaluate the perfor......The performance of different action recognition tech- niques has recently been studied by several computer vision researchers. However, the potential improvement in classi- fication through classifier fusion by ensemble-based meth- ods has remained unattended. In this work, we evaluate...... and diverse classifiers, each trained with different feature set. In addition, combining the outputs of several learners can reduce the risk of an unfortunate selec- tion of a learner on an unseen action recognition scenario. This leads to having a more robust and general-applicable framework. In order...

  17. ORNL Biometric Eye Model for Iris Recognition

    Santos-Villalobos, Hector J [ORNL; Barstow, Del R [ORNL; Karakaya, Mahmut [ORNL; Chaum, Edward [University of Tennessee, Knoxville (UTK); Boehnen, Chris Bensing [ORNL

    2012-01-01

    Iris recognition has been proven to be an accurate and reliable biometric. However, the recognition of non-ideal iris images such as off angle images is still an unsolved problem. We propose a new biometric targeted eye model and a method to reconstruct the off-axis eye to its frontal view allowing for recognition using existing methods and algorithms. This allows for existing enterprise level algorithms and approaches to be largely unmodified by using our work as a pre-processor to improve performance. In addition, we describe the `Limbus effect' and its importance for an accurate segmentation of off-axis irides. Our method uses an anatomically accurate human eye model and ray-tracing techniques to compute a transformation function, which reconstructs the iris to its frontal, non-refracted state. Then, the same eye model is used to render a frontal view of the reconstructed iris. The proposed method is fully described and results from synthetic data are shown to establish an upper limit on performance improvement and establish the importance of the proposed approach over traditional linear elliptical unwrapping methods. Our results with synthetic data demonstrate the ability to perform an accurate iris recognition with an image taken as much as 70 degrees off-axis.

  18. A smoothness constraint on the development of object recognition.

    Wood, Justin N

    2016-08-01

    Understanding how the brain learns to recognize objects is one of the ultimate goals in the cognitive sciences. To date, however, we have not yet characterized the environmental factors that cause object recognition to emerge in the newborn brain. Here, I present the results of a high-throughput controlled-rearing experiment that examined whether the development of object recognition requires experience with temporally smooth visual objects. When newborn chicks (Gallus gallus) were raised with virtual objects that moved smoothly over time, the chicks developed accurate color recognition, shape recognition, and color-shape binding abilities. In contrast, when newborn chicks were raised with virtual objects that moved non-smoothly over time, the chicks' object recognition abilities were severely impaired. These results provide evidence for a "smoothness constraint" on newborn object recognition. Experience with temporally smooth objects facilitates the development of object recognition. PMID:27208825

  19. PLMItRNA, a database for mitochondrial tRNA genes and tRNAs in photosynthetic eukaryotes

    Damiano, Fabrizio; Gallerani, Raffaele; Liuni, Sabino; Licciulli, Flavio; Ceci, Luigi R.

    2001-01-01

    The PLMItRNA database for mitochondrial tRNA molecules and genes in Viridiplantae (green plants) [Volpetti,V., Gallerani,R., DeBenedetto,C., Liuni,S., Licciulli,F. and Ceci,L.R. (2000) Nucleic Acids Res., 28, 159–162] has been enlarged to include algae. The database now contains 436 genes and 16 tRNA entries relative to 25 higher plants, eight green algae, four red algae (Rhodophytae) and two Stramenopiles. The PLMItRNA database is accessible via the WWW at http://bio-www.ba.cnr.it:8000/PLMItRNA. PMID:11125079

  20. Small tandemly repeated DNA sequences of higher plants likely originate from a tRNA gene ancestor.

    Benslimane, A A; Dron, M; Hartmann, C; Rode, A.

    1986-01-01

    Several monomers (177 bp) of a tandemly arranged repetitive nuclear DNA sequence of Brassica oleracea have been cloned and sequenced. They share up to 95% homology between one another and up to 80% with other satellite DNA sequences of Cruciferae, suggesting a common ancestor. Both strands of these monomers show more than 50% homology with many tRNA genes; the best homologies have been obtained with Lys and His yeast mitochondrial tRNA genes (respectively 64% and 60%). These results suggest t...

  1. Duplication and Remolding of tRNA Genes in the Mitochondrial Genome of Reduvius tenebrosus (Hemiptera: Reduviidae)

    Pei Jiang; Hu Li; Fan Song; Yao Cai; Jianyun Wang; Jinpeng Liu; Wanzhi Cai

    2016-01-01

    Most assassin bugs are predators that act as important natural enemies of insect pests. Mitochondrial (mt) genomes of these insects are double-strand circular DNAs that encode 37 genes. In the present study, we explore the duplication and rearrangement of tRNA genes in the mt genome of Reduvius tenebrosus, the first mt genome from the subfamily Reduviinae. The gene order rearranges from CR (control region)-trnI-trnQ-trnM-ND2 to CR-trnQ-trnI2-trnI1-trnM-ND2. We identified 23 tRNA genes, includ...

  2. Structure and Activity of an Aminoacyl-tRNA Synthetase that Charges tRNA with Nitro-Tryptophan

    Buddha,M.; Crane, B.

    2005-01-01

    The most divergent of two tryptophanyl tRNA synthetases (TrpRS II) found in Deinococcus radiodurans interacts with a nitric oxide synthase protein that produces 4-nitro-tryptophan (4-NRP). TrpRS II efficiently charges transfer RNATrp with 4-NRP and 5-hydroxy-tryptophan (5-HRP). The crystal structures of TrpRS II bound to tryptophan and 5-HRP reveal residue substitutions that accommodate modified indoles. A class of auxiliary bacterial TrpRSs conserve this capacity to charge tRNA with nonstandard amino acids.

  3. Escherichia coli B lacks one of the two initiator tRNA species present in E. coli K-12.

    Mandal, N; RajBhandary, U L

    1992-01-01

    We show that the metY locus which specifies tRNA(2fMet) in Escherichia coli K-12 specifies tRNA(1fMet) in E. coli B. This conclusion is based on results of Southern blot analysis of E. coli B and K-12 DNAs and on polymerase chain reaction amplification, cloning, and sequencing of an approximately 200-bp region of DNA corresponding to the metY loci of E. coli B and E. coli K-12. We also show that the metY locus of E. coli B is transcriptionally active. E. coli strains transformed with the mult...

  4. Novel Techniques for Dialectal Arabic Speech Recognition

    Elmahdy, Mohamed; Minker, Wolfgang

    2012-01-01

    Novel Techniques for Dialectal Arabic Speech describes approaches to improve automatic speech recognition for dialectal Arabic. Since speech resources for dialectal Arabic speech recognition are very sparse, the authors describe how existing Modern Standard Arabic (MSA) speech data can be applied to dialectal Arabic speech recognition, while assuming that MSA is always a second language for all Arabic speakers. In this book, Egyptian Colloquial Arabic (ECA) has been chosen as a typical Arabic dialect. ECA is the first ranked Arabic dialect in terms of number of speakers, and a high quality ECA speech corpus with accurate phonetic transcription has been collected. MSA acoustic models were trained using news broadcast speech. In order to cross-lingually use MSA in dialectal Arabic speech recognition, the authors have normalized the phoneme sets for MSA and ECA. After this normalization, they have applied state-of-the-art acoustic model adaptation techniques like Maximum Likelihood Linear Regression (MLLR) and M...

  5. Automatic modulation recognition of communication signals

    Azzouz, Elsayed Elsayed

    1996-01-01

    Automatic modulation recognition is a rapidly evolving area of signal analysis. In recent years, interest from the academic and military research institutes has focused around the research and development of modulation recognition algorithms. Any communication intelligence (COMINT) system comprises three main blocks: receiver front-end, modulation recogniser and output stage. Considerable work has been done in the area of receiver front-ends. The work at the output stage is concerned with information extraction, recording and exploitation and begins with signal demodulation, that requires accurate knowledge about the signal modulation type. There are, however, two main reasons for knowing the current modulation type of a signal; to preserve the signal information content and to decide upon the suitable counter action, such as jamming. Automatic Modulation Recognition of Communications Signals describes in depth this modulation recognition process. Drawing on several years of research, the authors provide a cr...

  6. The Recognition Heuristic: A Review of Theory and Tests

    Thorsten ePachur

    2011-07-01

    Full Text Available The recognition heuristic is a prime example of how, by exploiting a match between mind and environment, a simple mental strategy can lead to efficient decision making. The proposal of the heuristic initiated a debate about the processes underlying the use of recognition in decision making. We review research addressing four key aspects of the recognition heuristic: (a that recognition is often an ecologically valid cue; (b that people often follow recognition when making inferences; (c that recognition supersedes further cue knowledge; (d that its use can produce the less-is-more effect—the phenomenon that lesser states of recognition knowledge can lead to more accurate inferences than more complete states. After we contrast the recognition heuristic to other related concepts, including availability and fluency, we carve out, from the existing findings, some boundary conditions of the use of the recognition heuristic as well as key questions for future research. Moreover, we summarize developments concerning the connection of the recognition heuristic with memory models. We suggest that the recognition heuristic is used adaptively and that, compared to other cues, recognition seems to have a special status in decision making. Finally, we discuss how systematic ignorance is exploited in other cognitive mechanisms (e.g., estimation and preference.

  7. The recognition heuristic: a review of theory and tests.

    Pachur, Thorsten; Todd, Peter M; Gigerenzer, Gerd; Schooler, Lael J; Goldstein, Daniel G

    2011-01-01

    The recognition heuristic is a prime example of how, by exploiting a match between mind and environment, a simple mental strategy can lead to efficient decision making. The proposal of the heuristic initiated a debate about the processes underlying the use of recognition in decision making. We review research addressing four key aspects of the recognition heuristic: (a) that recognition is often an ecologically valid cue; (b) that people often follow recognition when making inferences; (c) that recognition supersedes further cue knowledge; (d) that its use can produce the less-is-more effect - the phenomenon that lesser states of recognition knowledge can lead to more accurate inferences than more complete states. After we contrast the recognition heuristic to other related concepts, including availability and fluency, we carve out, from the existing findings, some boundary conditions of the use of the recognition heuristic as well as key questions for future research. Moreover, we summarize developments concerning the connection of the recognition heuristic with memory models. We suggest that the recognition heuristic is used adaptively and that, compared to other cues, recognition seems to have a special status in decision making. Finally, we discuss how systematic ignorance is exploited in other cognitive mechanisms (e.g., estimation and preference). PMID:21779266

  8. The Pai-associated leuX specific tRNA5(Leu) affects type 1fimbriation in pathogenic Escherichia coli by control of FimB recombinase expression

    Ritter, A.; Gally, D.; Olsen, Peter Bjarke;

    1997-01-01

    The uropathogenic Escherichia coli strain 536 (06:K15:H31) carries two large chromosomalpathogenicity islands (Pais). Both Pais are flanked by tRNA genes. Spontaneous deletion of Pai IIresults in truncation of the leuX tRNA5Leu gene. This tRNA is required for the expression of type 1fimbriae (Fim...

  9. Trm9-Catalyzed tRNA Modifications Regulate Global Protein Expression by Codon-Biased Translation.

    Wenjun Deng

    2015-12-01

    Full Text Available Post-transcriptional modifications of transfer RNAs (tRNAs have long been recognized to play crucial roles in regulating the rate and fidelity of translation. However, the extent to which they determine global protein production remains poorly understood. Here we use quantitative proteomics to show a direct link between wobble uridine 5-methoxycarbonylmethyl (mcm5 and 5-methoxy-carbonyl-methyl-2-thio (mcm5s2 modifications catalyzed by tRNA methyltransferase 9 (Trm9 in tRNAArg(UCU and tRNAGlu(UUC and selective translation of proteins from genes enriched with their cognate codons. Controlling for bias in protein expression and alternations in mRNA expression, we find that loss of Trm9 selectively impairs expression of proteins from genes enriched with AGA and GAA codons under both normal and stress conditions. Moreover, we show that AGA and GAA codons occur with high frequency in clusters along the transcripts, which may play a role in modulating translation. Consistent with these results, proteins subject to enhanced ribosome pausing in yeast lacking mcm5U and mcm5s2U are more likely to be down-regulated and contain a larger number of AGA/GAA clusters. Together, these results suggest that Trm9-catalyzed tRNA modifications play a significant role in regulating protein expression within the cell.

  10. Competing pathways control host resistance to virus via tRNA modification and programmed ribosomal frameshifting.

    Maynard, Nathaniel D; Macklin, Derek N; Kirkegaard, Karla; Covert, Markus W

    2012-01-01

    Viral infection depends on a complex interplay between host and viral factors. Here, we link host susceptibility to viral infection to a network encompassing sulfur metabolism, tRNA modification, competitive binding, and programmed ribosomal frameshifting (PRF). We first demonstrate that the iron-sulfur cluster biosynthesis pathway in Escherichia coli exerts a protective effect during lambda phage infection, while a tRNA thiolation pathway enhances viral infection. We show that tRNA(Lys) uridine 34 modification inhibits PRF to influence the ratio of lambda phage proteins gpG and gpGT. Computational modeling and experiments suggest that the role of the iron-sulfur cluster biosynthesis pathway in infection is indirect, via competitive binding of the shared sulfur donor IscS. Based on the universality of many key components of this network, in both the host and the virus, we anticipate that these findings may have broad relevance to understanding other infections, including viral infection of humans. PMID:22294093

  11. Quantitative single cell monitoring of protein synthesis at subcellular resolution using fluorescently labeled tRNA.

    Barhoom, Sima; Kaur, Jaskiran; Cooperman, Barry S; Smorodinsky, Nechama I; Smilansky, Zeev; Ehrlich, Marcelo; Elroy-Stein, Orna

    2011-10-01

    We have developed a novel technique of using fluorescent tRNA for translation monitoring (FtTM). FtTM enables the identification and monitoring of active protein synthesis sites within live cells at submicron resolution through quantitative microscopy of transfected bulk uncharged tRNA, fluorescently labeled in the D-loop (fl-tRNA). The localization of fl-tRNA to active translation sites was confirmed through its co-localization with cellular factors and its dynamic alterations upon inhibition of protein synthesis. Moreover, fluorescence resonance energy transfer (FRET) signals, generated when fl-tRNAs, separately labeled as a FRET pair occupy adjacent sites on the ribosome, quantitatively reflect levels of protein synthesis in defined cellular regions. In addition, FRET signals enable detection of intra-populational variability in protein synthesis activity. We demonstrate that FtTM allows quantitative comparison of protein synthesis between different cell types, monitoring effects of antibiotics and stress agents, and characterization of changes in spatial compartmentalization of protein synthesis upon viral infection. PMID:21795382

  12. Recognition of Problem Drinkers

    Cornel, Michiel; van Zutphen, Wim M.

    1989-01-01

    General practitioners often see patients with problems related to drinking behaviour, but recognize only a small proportion of these problem drinkers. The authors discuss some mechanisms of this non-recognition phenomenon and suggest ways to enhance early recognition.

  13. Speech recognition and understanding

    Vintsyuk, T.K.

    1983-05-01

    This article discusses the automatic processing of speech signals with the aim of finding a sequence of works (speech recognition) or a concept (speech understanding) being transmitted by the speech signal. The goal of the research is to develop an automatic typewriter that will automatically edit and type text under voice control. A dynamic programming method is proposed in which all possible class signals are stored, after which the presented signal is compared to all the stored signals during the recognition phase. Topics considered include element-by-element recognition of words of speech, learning speech recognition, phoneme-by-phoneme speech recognition, the recognition of connected speech, understanding connected speech, and prospects for designing speech recognition and understanding systems. An application of the composition dynamic programming method for the solution of basic problems in the recognition and understanding of speech is presented.

  14. Efficient Interaction Recognition through Positive Action Representation

    Tao Hu

    2013-01-01

    Full Text Available This paper proposes a novel approach to decompose two-person interaction into a Positive Action and a Negative Action for more efficient behavior recognition. A Positive Action plays the decisive role in a two-person exchange. Thus, interaction recognition can be simplified to Positive Action-based recognition, focusing on an action representation of just one person. Recently, a new depth sensor has become widely available, the Microsoft Kinect camera, which provides RGB-D data with 3D spatial information for quantitative analysis. However, there are few publicly accessible test datasets using this camera, to assess two-person interaction recognition approaches. Therefore, we created a new dataset with six types of complex human interactions (i.e., named K3HI, including kicking, pointing, punching, pushing, exchanging an object, and shaking hands. Three types of features were extracted for each Positive Action: joint, plane, and velocity features. We used continuous Hidden Markov Models (HMMs to evaluate the Positive Action-based interaction recognition method and the traditional two-person interaction recognition approach with our test dataset. Experimental results showed that the proposed recognition technique is more accurate than the traditional method, shortens the sample training time, and therefore achieves comprehensive superiority.

  15. RECOGNITION OF CONTESTED STATES

    Ali, Nanna; Ben-Ahmed, Michele; Bom, Thomas Falk; Ching, Rune Kieran; Steffensen, Lars Schmidt; Funningsstovu, Janus Hanusarson í

    2012-01-01

    Contested states have existed in many decades and been on the political agenda worldwide. A small group of entities in the world are aspiring for recognition and independence, while some entities gained recognition relatively smoothly. This project accounts for UN’s recognition process and investigates entities prospects of influencing the process for obtaining recognition. Based on theories of liberalism and constructivism as well as the opposing theories of international relations, re...

  16. Recognition and Teleportation

    Fichtner, K. -H.; Freudenberg, W.; Ohya, M.

    2004-01-01

    We study a possible function of brain, in particular, we try to describe several aspects of the process of recognition. In order to understand the fundamental parts of the recognition process, the quantum teleportation scheme seems to be useful. We consider a channel expression of the teleportation process that serves for a simplified description of the recognition process in brain.

  17. Hierarchical Recognition Scheme for Human Facial Expression Recognition Systems

    Muhammad Hameed Siddiqi

    2013-12-01

    Full Text Available Over the last decade, human facial expressions recognition (FER has emerged as an important research area. Several factors make FER a challenging research problem. These include varying light conditions in training and test images; need for automatic and accurate face detection before feature extraction; and high similarity among different expressions that makes it difficult to distinguish these expressions with a high accuracy. This work implements a hierarchical linear discriminant analysis-based facial expressions recognition (HL-FER system to tackle these problems. Unlike the previous systems, the HL-FER uses a pre-processing step to eliminate light effects, incorporates a new automatic face detection scheme, employs methods to extract both global and local features, and utilizes a HL-FER to overcome the problem of high similarity among different expressions. Unlike most of the previous works that were evaluated using a single dataset, the performance of the HL-FER is assessed using three publicly available datasets under three different experimental settings: n-fold cross validation based on subjects for each dataset separately; n-fold cross validation rule based on datasets; and, finally, a last set of experiments to assess the effectiveness of each module of the HL-FER separately. Weighted average recognition accuracy of 98.7% across three different datasets, using three classifiers, indicates the success of employing the HL-FER for human FER.

  18. Dysfunctions of Facial Emotion Recognition in Adult Neuropsychiatric Disorders: Influence on interpersonal difficulties

    Charles Kornreich; Pierre Philippot

    2006-01-01

    Emotional facial expression (EFE) accurate recognition is needed to ensure good interpersonal communication and relationship. Impaired recognition of emotional facial expressions has been described in many neuropsychiatric disorders. Neuronal circuits dysfunctions and/or inappropriate learning processes could explain these recognition difficulties. EFE decoding disturbances in adult neuropsychiatric disorders are reviewed. For some of these disorders, a correlation has been evidenced between ...

  19. An accurate and robust gyroscope-gased pedometer.

    Lim, Yoong P; Brown, Ian T; Khoo, Joshua C T

    2008-01-01

    Pedometers are known to have steps estimation issues. This is mainly attributed to their innate acceleration based measuring sensory. A micro-machined gyroscope (better immunity to acceleration) based pedometer is proposed. Through syntactic data recognition of apriori knowledge of human shank's dynamics and temporally précised detection of heel strikes permitted by Wavelet decomposition, an accurate and robust pedometer is acquired. PMID:19163737

  20. Recognition of human face based on improved multi-sample

    LIU Xia; LI Lei-lei; LI Ting-jun; LIU Lu; ZHANG Ying

    2009-01-01

    In order to solve the problem caused by variation illumination in human face recognition, we bring forward a face recognition algorithm based on the improved muhi-sample. In this algorithm, the face image is processed with Retinex theory, meanwhile, the Gabor filter is adopted to perform the feature extraction. The experimental results show that the application of Retinex theory improves the recognition accuracy, and makes the algorithm more robust to the variation illumination. The Gabor filter is more effective and accurate for extracting more useable facial local features. It is proved that the proposed algorithm has good recognition accuracy and it is stable under variation illumination.

  1. Archease from Pyrococcus abyssi improves substrate specificity and solubility of a tRNA m5C methyltransferase

    Auxilien, Sylvie; El Khadali, Fatima; Rasmussen, Anette;

    2007-01-01

    reading frame (PAB1947), which is shown here to encode a tRNA m(5)C methyltransferase. In vitro, the purified recombinant methyltransferase catalyzes m(5)C formation at several cytosines within tRNAs with preference for C49. The specificity of the methyltransferase is increased by the archease...

  2. A story with a good ending: tRNA 3'-end maturation by CCA-adding enzymes.

    Xiong, Yong; Steitz, Thomas A

    2006-02-01

    CCA-adding enzymes (tRNA nucleotidyltransferases) are responsible for the maturation or repair of the functional 3' end of tRNAs. These enzymes are remarkable because they polymerize the essential nucleotides CCA onto the 3' terminus of tRNA precursors without using a nucleic acid template. Recent crystal structures, plus three decades of enzymology, have revealed the elegant mechanisms by which CCA-adding enzymes achieve their substrate specificity in a nucleic acid template independent fashion. The class I CCA-adding enzyme employs both an arginine sidechain and backbone phosphates of the bound tRNA to recognize incoming nucleotides. It switches from C to A addition through changes in the size and shape of the nucleotide-binding pocket, which is progressively altered by the elongating 3' terminus of the tRNA. By contrast, the class II CCA-adding enzyme uses only amino acid sidechains, which form a protein template for incoming nucleotide selection. PMID:16364630

  3. Electrophoretic mobility shift assays: analysis of tRNA binding to the T box riboswitch antiterminator RNA.

    Anupam, R; Zhou, S; Hines, J V

    2015-01-01

    Changes in electrophoretic mobility upon complex formation with RNA can be used to probe structure-function relationships that are critical for complex formation. Here, we describe the application of this technique to monitor tRNA binding to the T box riboswitch antiterminator RNA. PMID:25352142

  4. Several RNase T2 enzymes function in induced tRNA and rRNA turnover in the ciliate Tetrahymena

    Andersen, Kasper Langebjerg; Collins, Kathleen

    2012-01-01

    RNase T2 enzymes are produced by a wide range of organisms and have been implicated to function in diverse cellular processes, including stress-induced anticodon loop cleavage of mature tRNAs to generate tRNA halves. Here we describe a family of eight RNase T2 genes (RNT2A-RNT2H) in the ciliate...

  5. Evidence that the mitochondrial leucyl tRNA synthetase (LARS2) gene represents a novel type 2 diabetes susceptibility gene

    L.M. 't Hart (Leen); H.A.P. Pols (Huib); T. Hansen (Torben); I. Rietveld (Ingrid); J.M. Dekker (Jacqueline); J.A. Maassen (Johannes); M.G.A.A.M. Nijpels (Giel); G.M.C. Janssen (George); P.P. Arp (Pascal); R.J. Heine (Robert); A.G. Uitterlinden (André); T. Jorgensen (Torben); C.M. van Duijn (Cock); K. Borch-Johnsen; O. Pedersen (Oluf)

    2005-01-01

    textabstractPreviously, we have shown that a mutation in the mitochondrial DNA-encoded tRNA(Leu(UUR)) gene is associated with type 2 diabetes. One of the consequences of this mutation is a reduced aminoacylation of tRNA(Leu(UUR)). In this study, we have examined whether variants in the leucyl tRNA s

  6. The ribosome triggers the stringent response by RelA via a highly distorted tRNA

    Agirrezabala, Xabier; Fernández, Israel S.; Kelley, Ann C.; Cartón, David Gil; Ramakrishnan, Venki; Valle, Mikel

    2013-01-01

    The bacterial stringent response is initiated by RelA and links nutrient starvation with the transcriptional control of genes. Cryo-EM now shows that RelA on the ribosome stabilizes an unusual distorted form of cognate, deacylated tRNA.

  7. Measurement of Acceptor-TΨC Helix Length of tRNA for Terminal A76-Addition by A-Adding Enzyme.

    Yamashita, Seisuke; Martinez, Anna; Tomita, Kozo

    2015-05-01

    The 3'-terminal CCA (C74C75A76-3') of tRNA is required for protein synthesis. In Aquifex aeolicus, the CCA-3' is synthesized by CC-adding and A-adding enzymes, although in most organisms, CCA is synthesized by a single CCA-adding enzyme. The mechanisms by which the A-adding enzyme adds only A76, but not C74C75, onto tRNA remained elusive. The complex structures of the enzyme with various tRNAs revealed the presence of a single tRNA binding site on the enzyme, with the enzyme measuring the acceptor-TΨC helix length of tRNA. The 3'-C75 of tRNA lacking A76 can reach the active site and the size and shape of the nucleotide binding pocket at the insertion stage are suitable for ATP. The 3'-C74 of tRNA lacking C75A76 cannot reach the active site, although CTP or ATP can bind the active pocket. Thus, the A-adding enzyme adds only A76, but not C74C75, onto tRNA. PMID:25914059

  8. RNA molecular turn-over in Tobacco cell cultures. II. Intramolecular and intermolecular differential turn-over of tRNA

    Tobacco cells, exponentially growing in a shaken liquid medium were labeled by addition of [32P]-phosphate during 30 minutes or 4 hours. The tRNA of these cells were extracted and fractionated by reversed phase chromatography (RPC5). The different fractions had the same specific radioactivity after a 4 hours labeling period. When the 32P pulse was shortened to 30 minutes the specific radioactivity of the tail fractions eluted from the RPC5 column chromatography was about two fold that of the head fractions. The fractions eluted from the RPC5 column all belonged to the tRNA population. Their electrophoretic behavior on polyacrylamide gels supplemented with formamide was that of tRNA; the enzymatic acylation of the total tRNA extract and of each fraction were satisfactory; moreover the more heavily labeled fractions were more acylated. Only mature tRNA are responsible for the observed differences between the specific radioactivities of the various tRNA fractions. These differences could not be assigned to the nucleotides of the vCvCvA-OH oligonucleotides 3'-end but were assigned to the transcribed part of the tRNA molecules. These results may be understood according to the hypotheses that either the precursor nucleotide pools of the tRNA incorporated [32P]-phosphate at different rates in different cell compartments, or that some tRNA species, tightly bound to the RPC5 solid phase of the columns, are more rapidly turned over. These explanations do not exclude each other

  9. Optical Pattern Recognition

    Yu, Francis T. S.; Jutamulia, Suganda

    2008-10-01

    Contributors; Preface; 1. Pattern recognition with optics Francis T. S. Yu and Don A. Gregory; 2. Hybrid neural networks for nonlinear pattern recognition Taiwei Lu; 3. Wavelets, optics, and pattern recognition Yao Li and Yunglong Sheng; 4. Applications of the fractional Fourier transform to optical pattern recognition David Mendlovic, Zeev Zalesky and Haldum M. Oxaktas; 5. Optical implementation of mathematical morphology Tien-Hsin Chao; 6. Nonlinear optical correlators with improved discrimination capability for object location and recognition Leonid P. Yaroslavsky; 7. Distortion-invariant quadratic filters Gregory Gheen; 8. Composite filter synthesis as applied to pattern recognition Shizhou Yin and Guowen Lu; 9. Iterative procedures in electro-optical pattern recognition Joseph Shamir; 10. Optoelectronic hybrid system for three-dimensional object pattern recognition Guoguang Mu, Mingzhe Lu and Ying Sun; 11. Applications of photrefractive devices in optical pattern recognition Ziangyang Yang; 12. Optical pattern recognition with microlasers Eung-Gi Paek; 13. Optical properties and applications of bacteriorhodopsin Q. Wang Song and Yu-He Zhang; 14. Liquid-crystal spatial light modulators Aris Tanone and Suganda Jutamulia; 15. Representations of fully complex functions on real-time spatial light modulators Robert W. Cohn and Laurence G. Hassbrook; Index.

  10. tRNA Core Hypothesis for the Transition from the RNA World to the Ribonucleoprotein World

    Savio T. de Farias

    2016-03-01

    Full Text Available Herein we present the tRNA core hypothesis, which emphasizes the central role of tRNAs molecules in the origin and evolution of fundamental biological processes. tRNAs gave origin to the first genes (mRNA and the peptidyl transferase center (rRNA, proto-tRNAs were at the core of a proto-translation system, and the anticodon and operational codes then arose in tRNAs molecules. Metabolic pathways emerged from evolutionary pressures of the decoding systems. The transitions from the RNA world to the ribonucleoprotein world to modern biological systems were driven by three kinds of tRNAs transitions, to wit, tRNAs leading to both mRNA and rRNA.

  11. On origin of genetic code and tRNA before translation

    Szathmáry Eörs

    2011-02-01

    Full Text Available Abstract Background Synthesis of proteins is based on the genetic code - a nearly universal assignment of codons to amino acids (aas. A major challenge to the understanding of the origins of this assignment is the archetypal "key-lock vs. frozen accident" dilemma. Here we re-examine this dilemma in light of 1 the fundamental veto on "foresight evolution", 2 modular structures of tRNAs and aminoacyl-tRNA synthetases, and 3 the updated library of aa-binding sites in RNA aptamers successfully selected in vitro for eight amino acids. Results The aa-binding sites of arginine, isoleucine and tyrosine contain both their cognate triplets, anticodons and codons. We have noticed that these cases might be associated with palindrome-dinucleotides. For example, one-base shift to the left brings arginine codons CGN, with CG at 1-2 positions, to the respective anticodons NCG, with CG at 2-3 positions. Formally, the concomitant presence of codons and anticodons is also expected in the reverse situation, with codons containing palindrome-dinucleotides at their 2-3 positions, and anticodons exhibiting them at 1-2 positions. A closer analysis reveals that, surprisingly, RNA binding sites for Arg, Ile and Tyr "prefer" (exactly as in the actual genetic code the anticodon(2-3/codon(1-2 tetramers to their anticodon(1-2/codon(2-3 counterparts, despite the seemingly perfect symmetry of the latter. However, since in vitro selection of aa-specific RNA aptamers apparently had nothing to do with translation, this striking preference provides a new strong support to the notion of the genetic code emerging before translation, in response to catalytic (and possibly other needs of ancient RNA life. Consistently with the pre-translation origin of the code, we propose here a new model of tRNA origin by the gradual, Fibonacci process-like, elongation of a tRNA molecule from a primordial coding triplet and 5'DCCA3' quadruplet (D is a base-determinator to the eventual 76 base

  12. The nucleotide sequence of histidine tRNA gamma of Drosophila melanogaster.

    Altwegg, M.; Kubli, E

    1980-01-01

    The nucleotide sequence of D. melanogaster histidine tRNA gamma was determined to be: pG-G-C-C-G-U-G-A-U-C-G-U-C-psi-A-G-D-G-G-D-D-A-G-G-A-C-C-C-C-A-C-G-psi-U-G-U-G- m1G-C-C-G-U-G-G-U-A-A-C-C-m5C-A-G-G-U-psi-C-G-m1A-A-U-C-C-U-G-G-U-C-A-C-G-G-m5C -A-C-C-AOH. An additional unpaired G is found at the 5' end, and the T in the TpsiC loop is replaced by a U.

  13. A Survey of Protein Fold Recognition Algorithms

    M. S. Abual-Rub

    2008-01-01

    Full Text Available Problem statement: Predicting the tertiary structure of proteins from their linear sequence is really a big challenge in biology. This challenge is related to the fact that the traditional computational methods are not powerful enough to search for the correct structure in the huge conformational space. This inadequate capability of the computational methods, however, is a major obstacle in facing this problem. Trying to solve the problem of the protein fold recognition, most of the researchers have examined the use of the protein threading technique. This problem is known as NP-hard; researchers have used various methods such as neural networks, Monte Carlo, support vector machine and genetic algorithms to solve it. Some researchers tried the use of the parallel evolutionary methods for protein fold recognition but it is less well known. Approach: We reviewed various algorithms that have been developed for protein structure prediction by threading and fold recognition. Moreover, we provided a survey of parallel evolutionary methods for protein fold recognition. Results: The findings of this survey showed that evolutionary methods can be used to resolve the protein fold recognition problem. Conclusion: There are two aspects of protein fold recognition problem: First is the computational difficulty and second is that current energy functions are still not accurate enough to calculate the free energy of a given conformation.

  14. Implicit Recognition Based on Lateralized Perceptual Fluency

    Iliana M. Vargas

    2012-02-01

    Full Text Available In some circumstances, accurate recognition of repeated images in an explicit memory test is driven by implicit memory. We propose that this “implicit recognition” results from perceptual fluency that influences responding without awareness of memory retrieval. Here we examined whether recognition would vary if images appeared in the same or different visual hemifield during learning and testing. Kaleidoscope images were briefly presented left or right of fixation during divided-attention encoding. Presentation in the same visual hemifield at test produced higher recognition accuracy than presentation in the opposite visual hemifield, but only for guess responses. These correct guesses likely reflect a contribution from implicit recognition, given that when the stimulated visual hemifield was the same at study and test, recognition accuracy was higher for guess responses than for responses with any level of confidence. The dramatic difference in guessing accuracy as a function of lateralized perceptual overlap between study and test suggests that implicit recognition arises from memory storage in visual cortical networks that mediate repetition-induced fluency increments.

  15. Mitochondrial tRNA 5'-editing in Dictyostelium discoideum and Polysphondylium pallidum.

    Abad, Maria G; Long, Yicheng; Kinchen, R Dimitri; Schindel, Elinor T; Gray, Michael W; Jackman, Jane E

    2014-05-30

    Mitochondrial tRNA (mt-tRNA) 5'-editing was first described more than 20 years ago; however, the first candidates for 5'-editing enzymes were only recently identified in a eukaryotic microbe (protist), the slime mold Dictyostelium discoideum. In this organism, eight of 18 mt-tRNAs are predicted to be edited based on the presence of genomically encoded mismatched nucleotides in their aminoacyl-acceptor stem sequences. Here, we demonstrate that mt-tRNA 5'-editing occurs at all predicted sites in D. discoideum as evidenced by changes in the sequences of isolated mt-tRNAs compared with the expected sequences encoded by the mitochondrial genome. We also identify two previously unpredicted editing events in which G-U base pairs are edited in the absence of any other genomically encoded mismatches. A comparison of 5'-editing in D. discoideum with 5'-editing in another slime mold, Polysphondylium pallidum, suggests organism-specific idiosyncrasies in the treatment of U-G/G-U pairs. In vitro activities of putative D. discoideum editing enzymes are consistent with the observed editing reactions and suggest an overall lack of tRNA substrate specificity exhibited by the repair component of the editing enzyme. Although the presence of terminal mismatches in mt-tRNA sequences is highly predictive of the occurrence of mt-tRNA 5'-editing, the variability in treatment of U-G/G-U base pairs observed here indicates that direct experimental evidence of 5'-editing must be obtained to understand the complete spectrum of mt-tRNA editing events in any species. PMID:24737330

  16. Crystal structure of tRNA m1A58 methyltransferase TrmI from Aquifex aeolicus in complex with S-adenosyl-l-methionine

    Kuratani, Mitsuo; Yanagisawa, Tatsuo; Ishii, Ryohei; Matsuno, Michiyo; Si, Shu-Yi; Katsura, Kazushige; Ushikoshi-Nakayama, Ryoko; Shibata, Rie; Shirouzu, Mikako; Bessho, Yoshitaka; Yokoyama, Shigeyuki

    2014-01-01

    The N 1-methyladenosine residue at position 58 of tRNA is found in the three domains of life, and contributes to the stability of the three-dimensional L-shaped tRNA structure. In thermophilic bacteria, this modification is important for thermal adaptation, and is catalyzed by the tRNA m1A58 methyltransferase TrmI, using S-adenosyl-l-methionine (AdoMet) as the methyl donor. We present the 2.2 Å crystal structure of TrmI from the extremely thermophilic bacterium Aquifex aeolicus, in complex wi...

  17. A ROBUST EYE LOCALIZATION ALGORITHM FOR FACE RECOGNITION

    Zhang Wencong; Li Xin; Yao Peng; Li Bin; Zhuang Zhenquan

    2008-01-01

    The accuracy of face alignment affects greatly the performance of a face recognition system.Since the face alignment is usually conducted using eye positions, the algorithm for accurate eye localization is essential for the accurate face recognition. In this paper, an algorithm is proposed for eye localization. First, the proper AdaBoost detection is adaptively trained to segment the region based on the special gray distribution in the region. After that, a fast radial symmetry operator is used to precisely locate the center of eyes. Experimental results show that the method can accurately locate the eyes, and it is robust to the variations of face poses, illuminations, expressions, and accessories.

  18. A Principal Component Analysis Method for Recognition of Human Faces: Eigenfaces Approach

    Shemi P M; Ali M.A

    2012-01-01

    Facial recognition is a biometric method of identifying a person based on a picture of their face. Facial recognition system is very much important for security, surveillance and in forensics. In this paper, a face recognition system based on eigenfaces approach of Principal Component Analysis (PCA) is proposed. The eigenfaces approach based on PCA is a very accurate method of facial recognition problem as lot of features can be extracted and all of the data of the image is analyzed together ...

  19. Substrate recognition and cleavage-site selection by a single-subunit protein-only RNase P.

    Brillante, Nadia; Gößringer, Markus; Lindenhofer, Dominik; Toth, Ursula; Rossmanith, Walter; Hartmann, Roland K

    2016-03-18

    RNase P is the enzyme that removes 5' extensions from tRNA precursors. With its diversity of enzyme forms-either protein- or RNA-based, ranging from single polypeptides to multi-subunit ribonucleoproteins-the RNase P enzyme family represents a unique model system to compare the evolution of enzymatic mechanisms. Here we present a comprehensive study of substrate recognition and cleavage-site selection by the nuclear single-subunit proteinaceous RNase P PRORP3 from Arabidopsis thaliana. Compared to bacterial RNase P, the best-characterized RNA-based enzyme form, PRORP3 requires a larger part of intact tRNA structure, but little to no determinants at the cleavage site or interactions with the 5' or 3' extensions of the tRNA. The cleavage site depends on the combined dimensions of acceptor stem and T domain, but also requires the leader to be single-stranded. Overall, the single-subunit PRORP appears mechanistically more similar to the complex nuclear ribonucleoprotein enzymes than to the simpler bacterial RNase P. Mechanistic similarity or dissimilarity among different forms of RNase P thus apparently do not necessarily reflect molecular composition or evolutionary relationship. PMID:26896801

  20. A Drosophila model for mito-nuclear diseases generated by an incompatible interaction between tRNA and tRNA synthetase.

    Holmbeck, Marissa A; Donner, Julia R; Villa-Cuesta, Eugenia; Rand, David M

    2015-08-01

    Communication between the mitochondrial and nuclear genomes is vital for cellular function. The assembly of mitochondrial enzyme complexes, which produce the majority of cellular energy, requires the coordinated expression and translation of both mitochondrially and nuclear-encoded proteins. The joint genetic architecture of this system complicates the basis of mitochondrial diseases, and mutations both in mitochondrial DNA (mtDNA)- and nuclear-encoded genes have been implicated in mitochondrial dysfunction. Previously, in a set of mitochondrial-nuclear introgression strains, we characterized a dual genome epistasis in which a naturally occurring mutation in the Drosophila simulans simw(501) mtDNA-encoded transfer RNA (tRNA) for tyrosine (tRNA(Tyr)) interacts with a mutation in the nuclear-encoded mitochondrially localized tyrosyl-tRNA synthetase from Drosophila melanogaster. Here, we show that the incompatible mitochondrial-nuclear combination results in locomotor defects, reduced mitochondrial respiratory capacity, decreased oxidative phosphorylation (OXPHOS) enzyme activity and severe alterations in mitochondrial morphology. Transgenic rescue strains containing nuclear variants of the tyrosyl-tRNA synthetase are sufficient to rescue many of the deleterious phenotypes identified when paired with the simw(501) mtDNA. However, the severity of this defective mito-nuclear interaction varies across traits and genetic backgrounds, suggesting that the impact of mitochondrial dysfunction might be tissue specific. Because mutations in mitochondrial tRNA(Tyr) are associated with exercise intolerance in humans, this mitochondrial-nuclear introgression model in Drosophila provides a means to dissect the molecular basis of these, and other, mitochondrial diseases that are a consequence of the joint genetic architecture of mitochondrial function. PMID:26035388

  1. Pattern recognition & machine learning

    Anzai, Y

    1992-01-01

    This is the first text to provide a unified and self-contained introduction to visual pattern recognition and machine learning. It is useful as a general introduction to artifical intelligence and knowledge engineering, and no previous knowledge of pattern recognition or machine learning is necessary. Basic for various pattern recognition and machine learning methods. Translated from Japanese, the book also features chapter exercises, keywords, and summaries.

  2. ANATOMY ON PATTERN RECOGNITION

    MAYANK PARASHER; SHRUTI SHARMA; A .K. SHARMA,; J.P.Gupta

    2011-01-01

    Pattern Recognition is the science of recognizing patterns by machines. This is very wide research area as of today, because every newresearch tries to make machine as intelligent as human for recognizing patterns. Pattern recognition is an active research and an importanttrait of ‘artificial intelligence’. This review paper introduces pattern recognition, its fundamental definitions, and provides understanding of related research work. This paper presents different types of algorithms, their...

  3. Context dependent speech recognition

    Andersson, Sebastian

    2006-01-01

    Poor speech recognition is a problem when developing spoken dialogue systems, but several studies has showed that speech recognition can be improved by post-processing of recognition output that use the dialogue context, acoustic properties of a user utterance and other available resources to train a statistical model to use as a filter between the speech recogniser and dialogue manager. In this thesis a corpus of logged interactions between users and a dialogue system was used...

  4. Statistical Pattern Recognition

    Webb, Andrew R

    2011-01-01

    Statistical pattern recognition relates to the use of statistical techniques for analysing data measurements in order to extract information and make justified decisions.  It is a very active area of study and research, which has seen many advances in recent years. Applications such as data mining, web searching, multimedia data retrieval, face recognition, and cursive handwriting recognition, all require robust and efficient pattern recognition techniques. This third edition provides an introduction to statistical pattern theory and techniques, with material drawn from a wide range of fields,

  5. A Modified Back propagation Algorithm for Optical Character Recognition

    Jitendra Shrivastav

    2013-06-01

    Full Text Available Character Recognition (CR has been an active area of research and due to its diverse applicable environment; it continues to be a challenging research topic. There is a clear need for optical character recognition in order to provide a fast and accurate method to search both existing images as well as large archives of existing paper documents. However, existing optical character recognition programs suffer from a flawed tradeoff between speed and accuracy, making it less attractive for large quantities of documents. In this thesis, we present a new neural network based method for optical character recognition as well as handwritten character recognition. Experimental results show that our proposed method achieves highest percent accuracy in optical character recognition. We present an overview of existing handwritten character recognition techniques. All these algorithms are described more or less on their own. Handwritten character recognition is a very popular and computationally expensive task. We also explain the fundamentals of handwritten character recognition. We describe today’s approaches for handwritten character recognition. From the broad variety of efficient techniques that have been developed we will compare the most important ones. We will systematize the techniques and analyze their performance based on both their run time performance and theoretical considerations. Their strengths and weaknesses are also investigated. It turns out that the behavior of the algorithms is much more similar as to be expected.

  6. Towards accurate emergency response behavior

    Nuclear reactor operator emergency response behavior has persisted as a training problem through lack of information. The industry needs an accurate definition of operator behavior in adverse stress conditions, and training methods which will produce the desired behavior. Newly assembled information from fifty years of research into human behavior in both high and low stress provides a more accurate definition of appropriate operator response, and supports training methods which will produce the needed control room behavior. The research indicates that operator response in emergencies is divided into two modes, conditioned behavior and knowledge based behavior. Methods which assure accurate conditioned behavior, and provide for the recovery of knowledge based behavior, are described in detail

  7. Biophysical insights into the intercalative interaction of surfactant cobalt(III) complexes of certain diimine ligands bound to yeast tRNA: Effects of hydrophobicity

    Nagaraj, Karuppiah; Sakthinathan, Subramanian; Arunachalam, Sankaralingam

    2015-08-01

    The interaction of two surfactant cobalt(III) complexes, cis-[Co(ip)2(DA)2](ClO4)3 1 and cis-[Co(dpq)2(DA)2](ClO4)3 2 where ip = imidazo[4,5-f][1,10]phenanthroline and dpq = dipyrido[3,2-d:2‧-3‧-f]quinoxaline with yeast tRNA have been explored by using electronic absorption, competitive binding, electrochemical studies and viscosity measurements. The results suggest that these complexes can bind to tRNA by intercalation. The presence of hydrophobic diimine ligand and the long aliphatic double chains of these complexes facilitate its intercalative interaction with the hydrophobic interior of the tRNA. The extent of tRNA binding of complex 2 has greater affinity than that of complex containing imidazo[4,5-f][1,10]phenanthroline ligands.

  8. Accurate determination of antenna directivity

    Dich, Mikael

    1997-01-01

    The derivation of a formula for accurate estimation of the total radiated power from a transmitting antenna for which the radiated power density is known in a finite number of points on the far-field sphere is presented. The main application of the formula is determination of directivity from power...

  9. Paradigms in object recognition

    A broad range of approaches has been proposed and applied for the complex and rather difficult task of object recognition that involves the determination of object characteristics and object classification into one of many a priori object types. Our paper revises briefly the three main different paradigms in pattern recognition, namely Bayesian statistics, neural networks, and expert systems. (author)

  10. Recognition as care

    Ahlmark, Nanna; Whyte, Susan Reynolds; Harting, Janneke;

    2014-01-01

    -based and solidarity-based recognition to analyse what was at stake in these experiences, and we engage Annemarie Mol’s concept of a logic of care to show how recognition unfolded practically during the training. We propose that participants’ wider social context and experiences of misrecognition situated the training...

  11. Iris Recognition: The Consequences of Image Compression

    Bishop DanielA

    2010-01-01

    Full Text Available Iris recognition for human identification is one of the most accurate biometrics, and its employment is expanding globally. The use of portable iris systems, particularly in law enforcement applications, is growing. In many of these applications, the portable device may be required to transmit an iris image or template over a narrow-bandwidth communication channel. Typically, a full resolution image (e.g., VGA is desired to ensure sufficient pixels across the iris to be confident of accurate recognition results. To minimize the time to transmit a large amount of data over a narrow-bandwidth communication channel, image compression can be used to reduce the file size of the iris image. In other applications, such as the Registered Traveler program, an entire iris image is stored on a smart card, but only 4 kB is allowed for the iris image. For this type of application, image compression is also the solution. This paper investigates the effects of image compression on recognition system performance using a commercial version of the Daugman iris2pi algorithm along with JPEG-2000 compression, and links these to image quality. Using the ICE 2005 iris database, we find that even in the face of significant compression, recognition performance is minimally affected.

  12. PLMItRNA, a database for tRNAs and tRNA genes in plant mitochondria: enlargement and updating

    Volpetti, Vito; Gallerani, Raffaele; De Benedetto, Caterina; Liuni, Sabino; Licciulli, Flavio; Ceci, Luigi R.

    2000-01-01

    The current version of PLMItRNA has been realized to constitute a database for tRNA molecules and genes identified in the mitochondria of all green plants (Viridiplantae). It is the enlargement of a previous database originally restricted to seed plants [Ceci,L.R., Volpicella,M., Liuni,S., Volpetti,V., Licciulli,F. and Gallerani,R. (1999) Nucleic Acids Res., 27, 156–157]. PLMItRNA reports information and multialignments on 254 genes and 16 tRNA molecules detected in 25 higher plants (one bryophyta and 24 vascular plants) and seven green algae. PLMItRNA is accessible via the WWW at http://bio-WWW.ba.cnr.it:8000/srs6/ PMID:10592210

  13. Determination of the Specificity Landscape for Ribonuclease P Processing of Precursor tRNA 5' Leader Sequences.

    Niland, Courtney N; Zhao, Jing; Lin, Hsuan-Chun; Anderson, David R; Jankowsky, Eckhard; Harris, Michael E

    2016-08-19

    Maturation of tRNA depends on a single endonuclease, ribonuclease P (RNase P), to remove highly variable 5' leader sequences from precursor tRNA transcripts. Here, we use high-throughput enzymology to report multiple-turnover and single-turnover kinetics for Escherichia coli RNase P processing of all possible 5' leader sequences, including nucleotides contacting both the RNA and protein subunits of RNase P. The results reveal that the identity of N(-2) and N(-3) relative to the cleavage site at N(1) primarily control alternative substrate selection and act at the level of association not the cleavage step. As a consequence, the specificity for N(-1), which contacts the active site and contributes to catalysis, is suppressed. This study demonstrates high-throughput RNA enzymology as a means to globally determine RNA specificity landscapes and reveals the mechanism of substrate discrimination by a widespread and essential RNA-processing enzyme. PMID:27336323

  14. Impaired protein translation in Drosophila models for Charcot–Marie–Tooth neuropathy caused by mutant tRNA synthetases

    Niehues, Sven; Bussmann, Julia; Steffes, Georg; Erdmann, Ines; Sun, Litao; Wagner, Marina; Wang, Guangxia; Koerdt, Sophia N.; Stum, Morgane; Rajbhandary, Uttam L.; Thomas, Ulrich; Aberle, Hermann; Burgess, Robert W.; Yang, Xiang-Lei; Dieterich, Daniela

    2014-01-01

    Dominant mutations in five tRNA synthetases cause Charcot–Marie–Tooth (CMT) neuropathy, suggesting that altered aminoacylation function underlies the disease. However, previous studies showed that loss of aminoacylation activity is not required to cause CMT. Here we present a Drosophila model for CMT with mutations in glycyl-tRNA synthetase (GARS). Expression of three CMT-mutant GARS proteins induces defects in motor performance and motor and sensory neuron morphology, and shortens lifespan. ...

  15. An entropy based analysis of the relationship between the DOW JONES Index and the TRNA Sentiment series

    Allen, David; McAleer, Michael; Singh, Abhay

    2016-01-01

    textabstractThis paper features an analysis of the relationship between the DOW JONES Industrial Average Index (DJIA) and a sentiment news series using daily data obtained from the Thomson Reuters News Analytics (TRNA)1 provided by SIRCA (The Securities Industry Research Centre of the Asia Pacic). The recent growth in the availability of on-line financial news sources such as internet news and social media sources provides instantaneous access to financial news. Various commercial agencies ha...

  16. Allosteric vs. spontaneous exit-site (E-site) tRNA dissociation early in protein synthesis

    Chen, Chunlai; Stevens, Benjamin; Kaur, Jaskiran; Smilansky, Zeev; Cooperman, Barry S.; Goldman, Yale E.

    2011-01-01

    During protein synthesis, deacylated transfer RNAs leave the ribosome via an exit (E) site after mRNA translocation. How the ribosome regulates tRNA dissociation and whether functional linkages between the aminoacyl (A) and E sites modulate the dynamics of protein synthesis have long been debated. Using single molecule fluorescence resonance energy transfer experiments, we find that, during early cycles of protein elongation, tRNAs are often held in the E site until being allosterically relea...

  17. The tRNA 30-end Processing Enzyme tRNase Z2 Contributes to Chloroplast Biogenesis in Rice

    Tuan Long; Dong Guo; Dong He; Wenjie Shen; Xianghua Li

    2013-01-01

    tRNase Z (TRZ) is a ubiquitous endonuclease that removes the 30-trailer from precursor tRNAs during maturation. In yeast and animals, TRZ regulates the cell cycle via its (t)RNA processing activity;however, its physiological function in higher plants has not been well characterized. This study describes the identification of a rice (Oryza sativa) TRZ2 mutant; plants homozygous for the osatrz2 mutation were albinos with deficient chlorophyll content. A microscopic analysis of the mutant plants revealed that the transition of proplastids to chloroplasts was arrested at an early stage, and the number and size of the plastids in callus cells was substantially decreased. A genetic complementation test and an RNA interference analysis confirmed that disruption of OsaTRZ2 was responsible for the mutant phenotype. OsaTRZ2 is expressed in all rice tissues, but is preferentially expressed in leaves, sheathes, and calli. OsaTRZ2 was subcellularly localized in chloroplasts, and displayed tRNA 30-end processing activity in both in vitro and in vivo assays. In the osatrz2 mutants, transcription of plastid-encoded and nucleus-encoded RNA polymerases was severely reduced and moderately increased, respectively. These results suggest that the tRNA 30 processing activity of OsaTRZ2 contributes to chloroplast biogenesis.

  18. MD Simulations of tRNA and Aminoacyl-tRNA Synthetases: Dynamics, Folding, Binding, and Allostery

    Rongzhong Li

    2015-07-01

    Full Text Available While tRNA and aminoacyl-tRNA synthetases are classes of biomolecules that have been extensively studied for decades, the finer details of how they carry out their fundamental biological functions in protein synthesis remain a challenge. Recent molecular dynamics (MD simulations are verifying experimental observations and providing new insight that cannot be addressed from experiments alone. Throughout the review, we briefly discuss important historical events to provide a context for how far the field has progressed over the past few decades. We then review the background of tRNA molecules, aminoacyl-tRNA synthetases, and current state of the art MD simulation techniques for those who may be unfamiliar with any of those fields. Recent MD simulations of tRNA dynamics and folding and of aminoacyl-tRNA synthetase dynamics and mechanistic characterizations are discussed. We highlight the recent successes and discuss how important questions can be addressed using current MD simulations techniques. We also outline several natural next steps for computational studies of AARS:tRNA complexes.

  19. The neuronal substrates of human olfactory based kin recognition.

    Lundström, Johan N; Boyle, Julie A; Zatorre, Robert J; Jones-Gotman, Marilyn

    2009-08-01

    Kin recognition, an evolutionary phenomenon ubiquitous among phyla, is thought to promote an individual's genes by facilitating nepotism and avoidance of inbreeding. Whereas isolating and studying kin recognition mechanisms in humans using auditory and visual stimuli is problematic because of the high degree of conscious recognition of the individual involved, kin recognition based on body odors is done predominantly without conscious recognition. Using this, we mapped the neural substrates of human kin recognition by acquiring measures of regional cerebral blood flow from women smelling the body odors of either their sister or their same-sex friend. The initial behavioral experiment demonstrated that accurate identification of kin is performed with a low conscious recognition. The subsequent neuroimaging experiment demonstrated that olfactory based kin recognition in women recruited the frontal-temporal junction, the insula, and the dorsomedial prefrontal cortex; the latter area is implicated in the coding of self-referent processing and kin recognition. We further show that the neuronal response is seemingly independent of conscious identification of the individual source, demonstrating that humans have an odor based kin detection system akin to what has been shown for other mammals. PMID:19067327

  20. Image analysis in automatic system of pollen recognition

    Piotr Rapiejko; Zbigniew M. Wawrzyniak; Ryszard S. Jachowicz; Dariusz Jurkiewicz

    2012-01-01

    In allergology practice and research, it would be convenient to receive pollen identification and monitoring results in much shorter time than it comes from human identification. Image based analysis is one of the approaches to an automated identification scheme for pollen grain and pattern recognition on such images is widely used as a powerful tool. The goal of such attempt is to provide accurate, fast recognition and classification and counting of pollen grains by computer system for monit...

  1. Iris Recognition using Mel-Fequency Cepstral Coefficient

    Shibli Nisar; Mushtaq Ali Khan; Muhammad Usman

    2014-01-01

    This paper proposes Iris feature extraction using Mel Frequency Cepstral Coefficient (MFCC). MFCC is originally used for speech and speaker recognition. The MFCC is applied in Iris recognition and the results obtained are very accurate and satisfactory. The system first takes the eye pattern of a person and after converting to 1D signal the MFCC is applied which extracts Iris features. The features are then compared with the features obtained in Enrollment phas...

  2. Automatic Facial Expression Recognition Using Features of Salient Facial Patches

    Happy, S L; Routray, Aurobinda

    2015-01-01

    Extraction of discriminative features from salient facial patches plays a vital role in effective facial expression recognition. The accurate detection of facial landmarks improves the localization of the salient patches on face images. This paper proposes a novel framework for expression recognition by using appearance features of selected facial patches. A few prominent facial patches, depending on the position of facial landmarks, are extracted which are active during emotion elicitation. ...

  3. NetVLAD: CNN architecture for weakly supervised place recognition

    Arandjelović, Relja; Gronat, Petr; Torii, Akihiko; Pajdla, Tomas; Sivic, Josef

    2015-01-01

    We tackle the problem of large scale visual place recognition , where the task is to quickly and accurately recognize the location of a given query photograph. We present the following three principal contributions. First, we develop a convolutional neural network (CNN) architecture that is trainable in an end-to-end manner directly for the place recognition task. The main component of this architecture, NetVLAD, is a new generalized VLAD layer, inspired by the " Vector of Locally Aggregated ...

  4. A Survey: Feature Extraction Methods for Iris Recognition

    Dolly Choudhary; Shamik Tiwari; Ajay Kumar Singh

    2012-01-01

    The biometrics is the study of physical traits or behavioral characteristics of human include items such as finger prints, face, hand geometry, gait, keystrokes, voice and iris. Among the biometrics, iris has highly accurate and reliable characteristics. An iris has unique structure and it remains stable over a person life time. Iris recognition is one of the biometric identification and authentication that employs pattern recognition technology with the help of high resolution. A general app...

  5. SIMULTANEOUS MULTIPLE TARGET RECOGNITION USING POLARIZATION AGILE WAVES

    Chen Xinwei; Zhao Jianzhong; Wu Wen

    2012-01-01

    A novel matching method for simultaneous multi-target recognition is proposed by jointly considering target's prior scattering knowledge and the polarization parameters of radar echoes.The matching coefficients are calculated for the judgment.MATLAB simulations show that several targets can be accurately recognized simultaneously,and a high recognition probability can be achieved in Monte Carlo simulations.The total execution time can be remarkably reduced in the Field Programmable Gate Array (FPGA) implementation of the matching procedure.

  6. Posture Recognition with a Top-view Camera

    Hu, N; Englebienne, G.; Kröse, B.

    2013-01-01

    We describe a system that recognizes human postures with heavy self-occlusion. In particular, we address posture recognition in a robot assisted-living scenario, where the environment is equipped with a top-view camera for monitoring human activities. This setup is very useful because top-view cameras lead to accurate localization and limited inter-occlusion between persons, but conversely they suffer from body parts being frequently self-occluded. The conventional way of posture recognition ...

  7. Handbook of Face Recognition

    Li, Stan Z

    2011-01-01

    This highly anticipated new edition provides a comprehensive account of face recognition research and technology, spanning the full range of topics needed for designing operational face recognition systems. After a thorough introductory chapter, each of the following chapters focus on a specific topic, reviewing background information, up-to-date techniques, and recent results, as well as offering challenges and future directions. Features: fully updated, revised and expanded, covering the entire spectrum of concepts, methods, and algorithms for automated face detection and recognition systems

  8. Mobile intention recognition

    Kiefer, Peter

    2011-01-01

    Mobile Intention Recognition addresses problems of practical relevance for mobile system engineers: how can we make mobile assistance systems more intelligent? How can we model and recognize patterns of human behavior which span more than a limited spatial context? This text provides an overview on plan and intention recognition, ranging from the late 1970s to very recent approaches. This overview is unique as it discusses approaches with respect to the specificities of mobile intention recognition. This book covers problems from research on mobile assistance systems using methods from artific

  9. Blending of heritable recognition cues among ant nestmates creates distinct colony gestalt odours but prevents within-colony nepotism

    van Zweden, Jelle Stijn; Brask, Josefine B.; Christensen, Jan H.;

    2010-01-01

    The evolution of sociality is facilitated by the recognition of close kin, but if kin recognition is too accurate, nepotistic behaviour within societies can dissolve social cohesion. In social insects, cuticular hydrocarbons act as nestmate recognition cues and are usually mixed among colony memb...

  10. A Survey: Feature Extraction Methods for Iris Recognition

    Dolly Choudhary

    2012-11-01

    Full Text Available The biometrics is the study of physical traits or behavioral characteristics of human include items such as finger prints, face, hand geometry, gait, keystrokes, voice and iris. Among the biometrics, iris has highly accurate and reliable characteristics. An iris has unique structure and it remains stable over a person life time. Iris recognition is one of the biometric identification and authentication that employs pattern recognition technology with the help of high resolution. A general approach of iris recognition system includes image acquisition, segmentation, feature Extraction, matching/classification. The performance of biometric system based on iris recognition depends on the selection of iris features. In this work performance of various feature extraction methods are analyzed for iris recognition

  11. Gene rearrangements and evolution of tRNA pseudogenes in the mitochondrial genome of the parrotfish (Teleostei: Perciformes: Scaridae).

    Mabuchi, Kohji; Miya, Masaki; Satoh, Takashi P; Westneat, Mark W; Nishida, Mutsumi

    2004-09-01

    Genomic size of animal mitochondrial DNA is usually minimized over time. Thus, when regional duplications occur, they are followed by a rapid elimination of redundant material. In contrast to this general view, we report here long-sustained tRNA pseudogenes in the mitochondrial genome (mitogenome) of teleost fishes of the family Scaridae (parrotfishes). During the course of a molecular phylogenetic study of the suborder Labroidei, we determined the complete nucleotide sequence of the mitogenome for a parrotfish, Chlorurus sordidus, and found a gene rearrangement accompanied by a tRNA pseudogene. In the typical gene order of vertebrates, a tRNA-gene cluster between ND1 and ND2 genes includes tRNA(Ile) (I), tRNA(Gln) (Q), and tRNA(Met) (M) genes in this order (IQM). However, in the mitogenome of the parrotfish, the tRNA(Met) gene was inserted between the tRNA(Ile) and the tRNA(Gln) genes, and the tRNA(Gln) gene was followed by a putative tRNA(Met) pseudogene (psiM). Such a tRNA gene rearrangement including a pseudogene (IMQpsiM) was found in all of the 10 examined species, representing 7 of the 10 currently recognized scarid genera. All sister groups examined (20 species of Labridae and a single species of Odacidae) had the typical gene order of vertebrate mitogenomes. Phylogenetic analysis of the tRNA(Met) genes and the resulting pseudogenes demonstrated that the ancestral tRNA(Met) gene was duplicated in a common ancestor of the parrotfish. Based on the fossil record, these results indicate that the pseudogenes have survived at least 14 million years. Most of the vertebrate mitochondrial gene rearrangements involving the IQM region have held the tRNA(Met) gene just upstream of the ND2 gene, and even in a few exceptional cases, including the present ones, the tRNA pseudogenes have been found in that position. In addition, most of these tRNA(Met) pseudogenes maintained clover-leaf secondary structures, with the remainder sustaining the clover-leaf structure in the

  12. Forensic speaker recognition

    Meuwly, Didier

    2009-01-01

    The aim of forensic speaker recognition is to establish links between individuals and criminal activities, through audio speech recordings. This field is multidisciplinary, combining predominantly phonetics, linguistics, speech signal processing, and forensic statistics. On these bases, expert-based

  13. Work and Recognition

    Willig, Rasmus

    2004-01-01

    -Pierre Le Goff, Christophe Dejours and Emmanuel Renault. In spite of many differences, their work is united by a critical description of the logic of work and its consequences for individual individuation. These theorists agree that the growth of autonomy, flexibility and mobility has destabilised......The article deals with the relationship between work and recognition, taking Axel Honneth’s social-philosophical theory of the struggle for recognition as its point of departure. In order to give sociological substance to Honneth’s theory, we turn to three contemporary social theorists - Jean...... individual and collective identity formation and has led to an increase in social pathological illnesses such as stress and depression. By juxtaposing these analyses with Honneth’s theory on recognition, we conclude that the contemporary logic of work is unable to provide adequate forms of recognition...

  14. Evaluating music emotion recognition

    Sturm, Bob L.

    2013-01-01

    A fundamental problem with nearly all work in music genre recognition (MGR)is that evaluation lacks validity with respect to the principal goals of MGR. This problem also occurs in the evaluation of music emotion recognition (MER). Standard approaches to evaluation, though easy to implement, do...... not reliably differentiate between recognizing genre or emotion from music, or by virtue of confounding factors in signals (e.g., equalization). We demonstrate such problems for evaluating an MER system, and conclude with recommendations....

  15. Towards Open World Recognition

    Bendale, Abhijit; Boult, Terrance

    2014-01-01

    With the of advent rich classification models and high computational power visual recognition systems have found many operational applications. Recognition in the real world poses multiple challenges that are not apparent in controlled lab environments. The datasets are dynamic and novel categories must be continuously detected and then added. At prediction time, a trained system has to deal with myriad unseen categories. Operational systems require minimum down time, even to learn. To handle...

  16. Automatic Licenses Plate Recognition

    Ronak P Patel; Narendra M Patel; Keyur Brahmbhatt

    2013-01-01

    This paper describes the Smart Vehicle Screening System, which can be installed into a tollboothfor automated recognition of vehicle license plate information using a photograph of a vehicle. An automatedsystem could then be implemented to control the payment of fees, parking areas, highways, bridges ortunnels, etc. This paper contains new algorithm for recognition number plate using Morphological operation,Thresholding operation, Edge detection, Bounding box analysis for number plate extract...

  17. Human Emotion Recognition System

    Dilbag Singh

    2012-01-01

    This paper discusses the application of feature extraction of facial expressions with combination of neural network for the recognition of different facial emotions (happy, sad, angry, fear, surprised, neutral etc..). Humans are capable of producing thousands of facial actions during communication that vary in complexity, intensity, and meaning. This paper analyses the limitations with existing system Emotion recognition using brain activity. In this paper by using an existing simulator I hav...

  18. Fingerprint Recognition System

    Bhawna Negi; Varun Sharma

    2012-01-01

    The popular Biometric used to authenticate a person is Fingerprint which is unique and permanent throughout a person’s life. A minutia matching is widely used for fingerprint recognition and can be classified as ridge ending and ridge bifurcation. In this paper we projected Fingerprint Recognition using Minutia Score Matching method (FRMSM). For Fingerprint thinning, the Block Filter is used, which scans the image at the boundary to preserves the quality of the image and extract the minutiae ...

  19. Android object recognition framework

    Karlsen, Mats-Gøran

    2012-01-01

    This thesis is a continuation of the author’s specialization project where the ultimate goal is to build an object recognition framework suitable for mobile devices in real world environments, where control over parameters such as illumination, distance, noise and availability of consistent network architectures are limited. Based on shortcomings related to object recognition performance and architectural issues the author’s goal was to increase the flexibility, usability and perfor...

  20. The Recognition Of Fatigue

    Elsass, Peter; Jensen, Bodil; Mørup, Rikke;

    2007-01-01

    Elsass P., Jensen B., Morup R., Thogersen M.H. (2007). The Recognition Of Fatigue: A qualitative study of life-stories from rehabilitation clients. International Journal of Psychosocial Rehabilitation. 11 (2), 75-87......Elsass P., Jensen B., Morup R., Thogersen M.H. (2007). The Recognition Of Fatigue: A qualitative study of life-stories from rehabilitation clients. International Journal of Psychosocial Rehabilitation. 11 (2), 75-87...

  1. Why recognition is rational

    Clintin P. Davis-Stober

    2010-07-01

    Full Text Available The Recognition Heuristic (Gigerenzer and Goldstein, 1996; Goldstein and Gigerenzer, 2002 makes the counter-intuitive prediction that a decision maker utilizing less information may do as well as, or outperform, an idealized decision maker utilizing more information. We lay a theoretical foundation for the use of single-variable heuristics such as the Recognition Heuristic as an optimal decision strategy within a linear modeling framework. We identify conditions under which over-weighting a single predictor is a mini-max strategy among a class of a priori chosen weights based on decision heuristics with respect to a measure of statistical lack of fit we call ``risk''. These strategies, in turn, outperform standard multiple regression as long as the amount of data available is limited. We also show that, under related conditions, weighting only one variable and ignoring all others produces the same risk as ignoring the single variable and weighting all others. This approach has the advantage of generalizing beyond the original environment of the Recognition Heuristic to situations with more than two choice options, binary or continuous representations of recognition, and to other single variable heuristics. We analyze the structure of data used in some prior recognition tasks and find that it matches the sufficient conditions for optimality in our results. Rather than being a poor or adequate substitute for a compensatory model, the Recognition Heuristic closely approximates an optimal strategy when a decision maker has finite data about the world.

  2. Energy functions for protein design I: Efficient and accurate continuum electrostatics and solvation

    Pokala, Navin; Handel, Tracy M.

    2004-01-01

    Electrostatics and solvation energies are important for defining protein stability, structural specificity, and molecular recognition. Because these energies are difficult to compute quickly and accurately, they are often ignored or modeled very crudely in computational protein design. To address this problem, we have developed a simple, fast, and accurate approximation for calculating Born radii in the context of protein design calculations. When these approximate Born radii are used with th...

  3. Accurate ab initio spin densities

    Boguslawski, Katharina; Legeza, Örs; Reiher, Markus

    2012-01-01

    We present an approach for the calculation of spin density distributions for molecules that require very large active spaces for a qualitatively correct description of their electronic structure. Our approach is based on the density-matrix renormalization group (DMRG) algorithm to calculate the spin density matrix elements as basic quantity for the spatially resolved spin density distribution. The spin density matrix elements are directly determined from the second-quantized elementary operators optimized by the DMRG algorithm. As an analytic convergence criterion for the spin density distribution, we employ our recently developed sampling-reconstruction scheme [J. Chem. Phys. 2011, 134, 224101] to build an accurate complete-active-space configuration-interaction (CASCI) wave function from the optimized matrix product states. The spin density matrix elements can then also be determined as an expectation value employing the reconstructed wave function expansion. Furthermore, the explicit reconstruction of a CA...

  4. Accurate Modeling of Advanced Reflectarrays

    Zhou, Min

    of the incident field, the choice of basis functions, and the technique to calculate the far-field. Based on accurate reference measurements of two offset reflectarrays carried out at the DTU-ESA Spherical NearField Antenna Test Facility, it was concluded that the three latter factors are particularly important...... to the conventional phase-only optimization technique (POT), the geometrical parameters of the array elements are directly optimized to fulfill the far-field requirements, thus maintaining a direct relation between optimization goals and optimization variables. As a result, better designs can be obtained compared...... using the GDOT to demonstrate its capabilities. To verify the accuracy of the GDOT, two offset contoured beam reflectarrays that radiate a high-gain beam on a European coverage have been designed and manufactured, and subsequently measured at the DTU-ESA Spherical Near-Field Antenna Test Facility...

  5. Accurate thickness measurement of graphene

    Shearer, Cameron J.; Slattery, Ashley D.; Stapleton, Andrew J.; Shapter, Joseph G.; Gibson, Christopher T.

    2016-03-01

    Graphene has emerged as a material with a vast variety of applications. The electronic, optical and mechanical properties of graphene are strongly influenced by the number of layers present in a sample. As a result, the dimensional characterization of graphene films is crucial, especially with the continued development of new synthesis methods and applications. A number of techniques exist to determine the thickness of graphene films including optical contrast, Raman scattering and scanning probe microscopy techniques. Atomic force microscopy (AFM), in particular, is used extensively since it provides three-dimensional images that enable the measurement of the lateral dimensions of graphene films as well as the thickness, and by extension the number of layers present. However, in the literature AFM has proven to be inaccurate with a wide range of measured values for single layer graphene thickness reported (between 0.4 and 1.7 nm). This discrepancy has been attributed to tip-surface interactions, image feedback settings and surface chemistry. In this work, we use standard and carbon nanotube modified AFM probes and a relatively new AFM imaging mode known as PeakForce tapping mode to establish a protocol that will allow users to accurately determine the thickness of graphene films. In particular, the error in measuring the first layer is reduced from 0.1-1.3 nm to 0.1-0.3 nm. Furthermore, in the process we establish that the graphene-substrate adsorbate layer and imaging force, in particular the pressure the tip exerts on the surface, are crucial components in the accurate measurement of graphene using AFM. These findings can be applied to other 2D materials.

  6. The Roles of Compensatory Evolution and Constraint in Aminoacyl tRNA Synthetase Evolution.

    Adrion, Jeffrey R; White, P Signe; Montooth, Kristi L

    2016-01-01

    Mitochondrial protein translation requires interactions between transfer RNAs encoded by the mitochondrial genome (mt-tRNAs) and mitochondrial aminoacyl tRNA synthetase proteins (mt-aaRS) encoded by the nuclear genome. It has been argued that animal mt-tRNAs have higher deleterious substitution rates relative to their nuclear-encoded counterparts, the cytoplasmic tRNAs (cyt-tRNAs). This dynamic predicts elevated rates of compensatory evolution of mt-aaRS that interact with mt-tRNAs, relative to aaRS that interact with cyt-tRNAs (cyt-aaRS). We find that mt-aaRS do evolve at significantly higher rates (exemplified by higher dN and dN/dS) relative to cyt-aaRS, across mammals, birds, and Drosophila. While this pattern supports a model of compensatory evolution, the level at which a gene is expressed is a more general predictor of protein evolutionary rate. We find that gene expression level explains 10-56% of the variance in aaRS dN/dS, and that cyt-aaRS are more highly expressed in addition to having lower dN/dS values relative to mt-aaRS, consistent with more highly expressed genes being more evolutionarily constrained. Furthermore, we find no evidence of positive selection acting on either class of aaRS protein, as would be expected under a model of compensatory evolution. Nevertheless, the signature of faster mt-aaRS evolution persists in mammalian, but not bird or Drosophila, lineages after controlling for gene expression, suggesting some additional effect of compensatory evolution for mammalian mt-aaRS. We conclude that gene expression is the strongest factor governing differential amino acid substitution rates in proteins interacting with mitochondrial versus cytoplasmic factors, with important differences in mt-aaRS molecular evolution among taxonomic groups. PMID:26416980

  7. A Hypertension-Associated tRNAAla Mutation Alters tRNA Metabolism and Mitochondrial Function

    Jiang, Pingping; Wang, Meng; Xue, Ling; Xiao, Yun; Yu, Jialing; Wang, Hui; Yao, Juan; Liu, Hao; Peng, Yanyan; Liu, Hanqing; Li, Haiying; Chen, Ye

    2016-01-01

    In this report, we investigated the pathophysiology of a novel hypertension-associated mitochondrial tRNAAla 5655A → G (m.5655A → G) mutation. The destabilization of a highly conserved base pairing (A1-U72) at the aminoacyl acceptor stem by an m.5655A → G mutation altered the tRNAAla function. An in vitro processing analysis showed that the m.5655A → G mutation reduced the efficiency of tRNAAla precursor 5′ end cleavage catalyzed by RNase P. By using cybrids constructed by transferring mitochondria from lymphoblastoid cell lines derived from a Chinese family into mitochondrial DNA (mtDNA)-less (ρo) cells, we showed a 41% reduction in the steady-state level of tRNAAla in mutant cybrids. The mutation caused an improperly aminoacylated tRNAAla, as suggested by aberrantly aminoacylated tRNAAla and slower electrophoretic mobility of mutated tRNA. A failure in tRNAAla metabolism contributed to variable reductions in six mtDNA-encoded polypeptides in mutant cells, ranging from 21% to 37.5%, with an average of a 29.1% reduction, compared to levels of the controls. The impaired translation caused reduced activities of mitochondrial respiration chains. Furthermore, marked decreases in the levels of mitochondrial ATP and membrane potential were observed in mutant cells. These caused increases in the production of reactive oxygen species in the mutant cybrids. The data provide evidence for the association of the tRNAAla 5655A → G mutation with hypertension. PMID:27161322

  8. Deletion analysis of the expression of rRNA genes and associated tRNA genes carried by a lambda transducing bacteriophage

    Transducing phage lambda ilv5 carries genes for rRNA's, spacer tRNA's (tRNA1/sup Ile/ and tRNA/sub 1B//sup Ala/), and two other tRNA's (tRNA1/sup Asp/ and tRNA/sup Trp/). We have isolated a mutant of lambda ilv5, lambda ilv5su7, which carries an amber suppressor mutation in the tRNA/sup Trp/ gene. A series of deletion mutants were isolated from the lambda ilv5su7 phage. Genetic and biochemical analyses of these deletion mutants have confirmed our previous conclusion that the genes for tRNA1/sup Asp/ and tRNA/sup Trp/ located at the distal end of the rRNA operon (rrnC) are cotranscribed with other rRNA genes in that operon. In addition, these deletions were used to define roughly the physical location of the promoter(s) of the rRNA operon carried by the lambda ilv5su7 transducing phage

  9. IRIS Biometric Recognition System Employing Canny Operator

    Binsu C. Kovoor

    2013-05-01

    Full Text Available Biometrics has become important in security applica tions. In comparison with many other biometric features, iris recognition has very high recognition accuracy because it depends on iris which is located in a place that still stable throughout human life and the probability to find two identical iris's is close to zero. The identifi cation system consists of several stages including segmentation stage which is the most serious and cr itical one. The current segmentation methods still have limitation in localizing the iri s due to circular shape consideration of the pupil. In this research, Daugman method is done to investigate the segmentation techniques. Eyelid detection is another step that has been incl uded in this study as a part of segmentation stage to localize the iris accurately and remove un wanted area that might be included. The obtained iris region is encoded using haar wavelets to construct the iris code, which contains the most discriminating feature in the iris pattern . Hamming distance is used for comparison of iris templates in the recognition stage. The datase t which is used for the study is UBIRIS database. A comparative study of different edge det ector operator is performed. It is observed that canny operator is best suited to extract most of the edges to generate the iris code for comparison. Recognition rate of 89% and rejection r ate of 95% is achieved.

  10. Face Recognition Using Simplified Fuzzy Artmap

    Antu Annam Thomas

    2011-02-01

    Full Text Available Face recognition has become one of the most active research areas of pattern recognition since the early1990s. This project thesis proposes a novel face recognition method based on Simplified Fuzzy ARTMAP(SFAM. For extracting features to be used for classification, combination of Principal ComponentAnalysis (PCA and Linear Discriminant Analysis (LDA is used. This is for improving the capability ofLDA and PCA when used alone.PCA reduces the dimensionality of input face images while LDA extractsthe features that help the classifier to classify the input face images. The classifier employed was SFAM.Experiment is conducted on ORL, Yale and Indian Face Database and results demonstrate SFAM’sefficiency as a recognizer. The training time of SFAM is negligible. SFAM has the added advantage thatthe network is adaptive, that is, during testing phase if the network comes across a new face that it is nottrained for; the network identifies this to be a new face and also learns this new face. Thus SFAM can beused in applications where database needs to be updated frequently. SFAM thus proves itself to be anefficient recognizer when a speedy, accurate and adaptive Face Recognition System is required.

  11. A More Accurate Fourier Transform

    Courtney, Elya

    2015-01-01

    Fourier transform methods are used to analyze functions and data sets to provide frequencies, amplitudes, and phases of underlying oscillatory components. Fast Fourier transform (FFT) methods offer speed advantages over evaluation of explicit integrals (EI) that define Fourier transforms. This paper compares frequency, amplitude, and phase accuracy of the two methods for well resolved peaks over a wide array of data sets including cosine series with and without random noise and a variety of physical data sets, including atmospheric $\\mathrm{CO_2}$ concentrations, tides, temperatures, sound waveforms, and atomic spectra. The FFT uses MIT's FFTW3 library. The EI method uses the rectangle method to compute the areas under the curve via complex math. Results support the hypothesis that EI methods are more accurate than FFT methods. Errors range from 5 to 10 times higher when determining peak frequency by FFT, 1.4 to 60 times higher for peak amplitude, and 6 to 10 times higher for phase under a peak. The ability t...

  12. A yeast tRNA mutant that causes pseudohyphal growth exhibits reduced rates of CAG codon translation

    Kemp, Alain J; Betney, Russell; Ciandrini, Luca; Schwenger, Alexandra C M; Romano, M. Carmen; Stansfield, Ian

    2012-01-01

    In Saccharomyces cerevisiae, the SUP70 gene encodes the CAG-decoding tRNAGln CUG. A mutant allele, sup70-65 , induces pseudohyphal growth on rich medium, an inappropriate nitrogen starvation response. This mutant tRNA is also a UAG nonsense suppressor via first base wobble. To investigate the basis of the pseudohyphal phenotype, 10 novel sup70 UAG suppressor alleles were identified, defining positions in the tRNAGln CUG anticodon stem that restrict first base wobble. However, none conferred p...

  13. Use of PCR Amplification of tRNA Gene-Linked Short Tandem Repeats for Genotyping Entamoeba histolytica§

    Ali, Ibne Karim M; Zaki, Mehreen; Clark, C. Graham

    2005-01-01

    We have developed a reliable method for PCR-based genotyping of Entamoeba histolytica based on variation in the numbers of short tandem repeats that are linked to tRNA genes in this species. Species-specific primer pairs were designed that differentiate E. histolytica from E. dispar as well as that reveal intraspecies PCR product length polymorphisms. The primers were tested with samples from different parts of the world, and DNA was extracted from cultured cells as well as liver abscess pus ...

  14. Occurrence and functional compatibility within Enterobacteriaceae of a tRNA species which inserts selenocysteine into protein.

    Heider, J; Leinfelder, W; Böck, A

    1989-01-01

    The selC gene from E. coli codes for a tRNA species (tRNA(UCASer] which is aminoacylated with L-serine and which cotranslationally inserts selenocysteine into selenoproteins. By means of Southern hybridization it was demonstrated that this gene occurs in all enterobacteria tested. To assess whether the unique primary and secondary structural features of the E. coli selC gene product are conserved in that of other organisms, the selC homologue from Proteus vulgaris was cloned and sequenced. It...

  15. Touchless palmprint recognition systems

    Genovese, Angelo; Scotti, Fabio

    2014-01-01

    This book examines the context, motivation and current status of biometric systems based on the palmprint, with a specific focus on touchless and less-constrained systems. It covers new technologies in this rapidly evolving field and is one of the first comprehensive books on palmprint recognition systems.It discusses the research literature and the most relevant industrial applications of palmprint biometrics, including the low-cost solutions based on webcams. The steps of biometric recognition are described in detail, including acquisition setups, algorithms, and evaluation procedures. Const

  16. Do GPs' medical records demonstrate a good recognition of depression? A new perspective on case extraction.

    Joling, K.J.; Marwijk, H.W.J. van; Piek, E.; Horst, H.E. van der; Penninx, B.W.; Verhaak, P.; Hout, H.P.J. van

    2011-01-01

    Background: Previous estimates of depression recognition in primary care are low and inconsistent. This may be due to registration artifacts and limited extraction efforts. This study investigated a) whether GPs' medical records demonstrate an accurate recognition of depression and b) which combinat

  17. Do GPs' medical records demonstrate a good recognition of depression? A new perspective on case extraction

    Joling, Karlijn J.; van Marwijk, Harm W. J.; Piek, Ellen; van der Horst, Henriette E.; Penninx, Brenda W.; Verhaak, Peter; van Hout, Hein P. J.

    2011-01-01

    Background: Previous estimates of depression recognition in primary care are low and inconsistent. This may be due to registration artifacts and limited extraction efforts. This study investigated a) whether GPs' medical records demonstrate an accurate recognition of depression and b) which combinat

  18. Wavelets and Face Recognition

    Dai, Dao-Qing; Yan, Hong

    2007-01-01

    Wavelets have been successfully used in image processing. Their ability to capture localized spatial-frequency information of image motivates their use for feature extraction. We give an overview of using wavelets in the face recognition technology. Due to limit of space the use of Gabor wavelets is not covered in this survey. Interested readers are referred to section 8.3 for references.

  19. Recognition of fractal graphs

    Perepelitsa, VA; Sergienko, [No Value; Kochkarov, AM

    1999-01-01

    Definitions of prefractal and fractal graphs are introduced, and they are used to formulate mathematical models in different fields of knowledge. The topicality of fractal-graph recognition from the point of view, of fundamental improvement in the efficiency of the solution of algorithmic problems i

  20. FINGERPRINT RECOGNITION SYSTEM DESIGN

    SONMEZ, Öznur Sinem; OZTAS, Oguzhan

    2010-01-01

    In this study, a minutiae-based fingerprint recognition system is implemented which includes normalization, enhancement, thinning, extraction of minutiae, elimination of false minutiae, orientation estimation, core point detection, finding reference points and matching processes. Accordingly, the effects of enhancement and elimination of false minutiae processes, methods of reference point determination and low quality fingerprint images on system performance are analyzed using two different ...

  1. Plant tRNA ligases are multifunctional enzymes that have diverged in sequence and substrate specificity from RNA ligases of other phylogenetic origins

    Englert, Markus; Beier, Hildburg

    2005-01-01

    Pre-tRNA splicing is an essential process in all eukaryotes. It requires the concerted action of an endonuclease to remove the intron and a ligase for joining the resulting tRNA halves as studied best in the yeast Saccharomyces cerevisiae. Here, we report the first characterization of an RNA ligase protein and its gene from a higher eukaryotic organism that is an essential component of the pre-tRNA splicing process. Purification of tRNA ligase from wheat germ by successive column chromatograp...

  2. Facial Emotion Recognition Using Context Based Multimodal Approach

    Priya Metri

    2011-12-01

    Full Text Available Emotions play a crucial role in person to person interaction. In recent years, there has been a growing interest in improving all aspects of interaction between humans and computers. The ability to understand human emotions is desirable for the computer in several applications especially by observing facial expressions. This paper explores a ways of human-computer interaction that enable the computer to be more aware of the user’s emotional expressions we present a approach for the emotion recognition from a facial expression, hand and body posture. Our model uses multimodal emotion recognition system in which we use two different models for facial expression recognition and for hand and body posture recognition and then combining the result of both classifiers using a third classifier which give the resulting emotion . Multimodal system gives more accurate result than a signal or bimodal system

  3. Facial Recognition in a Group-Living Cichlid Fish.

    Masanori Kohda

    Full Text Available The theoretical underpinnings of the mechanisms of sociality, e.g. territoriality, hierarchy, and reciprocity, are based on assumptions of individual recognition. While behavioural evidence suggests individual recognition is widespread, the cues that animals use to recognise individuals are established in only a handful of systems. Here, we use digital models to demonstrate that facial features are the visual cue used for individual recognition in the social fish Neolamprologus pulcher. Focal fish were exposed to digital images showing four different combinations of familiar and unfamiliar face and body colorations. Focal fish attended to digital models with unfamiliar faces longer and from a further distance to the model than to models with familiar faces. These results strongly suggest that fish can distinguish individuals accurately using facial colour patterns. Our observations also suggest that fish are able to rapidly (≤ 0.5 sec discriminate between familiar and unfamiliar individuals, a speed of recognition comparable to primates including humans.

  4. Sunspot drawings handwritten character recognition method based on deep learning

    Zheng, Sheng; Zeng, Xiangyun; Lin, Ganghua; Zhao, Cui; Feng, Yongli; Tao, Jinping; Zhu, Daoyuan; Xiong, Li

    2016-05-01

    High accuracy scanned sunspot drawings handwritten characters recognition is an issue of critical importance to analyze sunspots movement and store them in the database. This paper presents a robust deep learning method for scanned sunspot drawings handwritten characters recognition. The convolution neural network (CNN) is one algorithm of deep learning which is truly successful in training of multi-layer network structure. CNN is used to train recognition model of handwritten character images which are extracted from the original sunspot drawings. We demonstrate the advantages of the proposed method on sunspot drawings provided by Chinese Academy Yunnan Observatory and obtain the daily full-disc sunspot numbers and sunspot areas from the sunspot drawings. The experimental results show that the proposed method achieves a high recognition accurate rate.

  5. Methods and Software Architecture for Activity Recognition from Position Data

    Godsk, Torben

    This thesis describes my studies on the subject of recognizing cow activities from satellite based position data. The studies comprise methods and software architecture for activity recognition from position data, applied to cow activity recognition. The development of methods and software...... results of these calculations are applied to a given standard machine learning algorithm, and the activity, performed by the cow as the measurements were recorded, is recognized. The software architecture integrates these methods and ensures flexible activity recognition. For instance, it is flexible in...... relation to the use of different sensors modalities and/or within different domains. In addition, the methods and their integration with the software architecture ensures both robust and accurate activity recognition. Utilized, it enables me to classify the five activities robustly and with high success...

  6. AUTOMATIC RECOGNITION OF BOTH INTER AND INTRA CLASSES OF DIGITAL MODULATED SIGNALS USING ARTIFICIAL NEURAL NETWORK

    JIDE JULIUS POPOOLA

    2014-04-01

    Full Text Available In radio communication systems, signal modulation format recognition is a significant characteristic used in radio signal monitoring and identification. Over the past few decades, modulation formats have become increasingly complex, which has led to the problem of how to accurately and promptly recognize a modulation format. In addressing these challenges, the development of automatic modulation recognition systems that can classify a radio signal’s modulation format has received worldwide attention. Decision-theoretic methods and pattern recognition solutions are the two typical automatic modulation recognition approaches. While decision-theoretic approaches use probabilistic or likelihood functions, pattern recognition uses feature-based methods. This study applies the pattern recognition approach based on statistical parameters, using an artificial neural network to classify five different digital modulation formats. The paper deals with automatic recognition of both inter-and intra-classes of digitally modulated signals in contrast to most of the existing algorithms in literature that deal with either inter-class or intra-class modulation format recognition. The results of this study show that accurate and prompt modulation recognition is possible beyond the lower bound of 5 dB commonly acclaimed in literature. The other significant contribution of this paper is the usage of the Python programming language which reduces computational complexity that characterizes other automatic modulation recognition classifiers developed using the conventional MATLAB neural network toolbox.

  7. Autonomy and Recognition

    Miguel Giusti

    2007-04-01

    Full Text Available Resumen:El presente ensayo contiene dos partes. En la primera se hace una breve descripción de las carencias de la reflexión moral a las que parece venir al encuentro el concepto de reconocimiento. Charles Taylor y Axel Honneth, protagonistas en estos debates, dan buenas razones para dirigir la discusión hacia el tema del reconocimiento, pero no coinciden ni en su definición, ni en el modo de recuperar la tesis de Hegel, ni tampoco en la forma de tratar la relación entre autonomía y reconocimiento. En la segunda parte se analiza la concepción propiamente hegeliana, con la intención de destacar el nexo esencial, no la ruptura, que existe entre la noción de reconocimiento y el modelo conceptual de la voluntad libre o del espíritu. Abstract:This essay is divided into two parts. The first one is a short description of the deficiencies of moral reflection, which seem to lead the discussion towards the concept of recognition. Charles Taylor and Axel Honneth, two of the protagonists of these debates, give very good reasons for turning the argument towards the issue of recognition, but they do not agree on its definition, on the way to recover the Hegelian thesis, or on how to approach the relationship between autonomy and recognition. The second part constitutes an analysis of the Hegelian conception of recognition, in order to highlight the essential link –rather than the rupture– between the notion of recognition and the conceptual model of free will or spirit.

  8. Galeotti on recognition as inclusion

    Lægaard, Sune

    2008-01-01

    Anna Elisabetta Galeotti's theory of 'toleration as recognition' has been criticised by Peter Jones for being conceptually incoherent, since liberal toleration presupposes a negative attitude to differences, whereas multicultural recognition requires positive affirmation hereof. The paper spells...

  9. A yeast tRNA mutant that causes pseudohyphal growth exhibits reduced rates of CAG codon translation.

    Kemp, Alain J; Betney, Russell; Ciandrini, Luca; Schwenger, Alexandra C M; Romano, M Carmen; Stansfield, Ian

    2013-01-01

    In Saccharomyces cerevisiae, the SUP70 gene encodes the CAG-decoding tRNA(Gln)(CUG). A mutant allele, sup70-65, induces pseudohyphal growth on rich medium, an inappropriate nitrogen starvation response. This mutant tRNA is also a UAG nonsense suppressor via first base wobble. To investigate the basis of the pseudohyphal phenotype, 10 novel sup70 UAG suppressor alleles were identified, defining positions in the tRNA(Gln)(CUG) anticodon stem that restrict first base wobble. However, none conferred pseudohyphal growth, showing altered CUG anticodon presentation cannot itself induce pseudohyphal growth. Northern blot analysis revealed the sup70-65 tRNA(Gln)(CUG) is unstable, inefficiently charged, and 80% reduced in its effective concentration. A stochastic model simulation of translation predicted compromised expression of CAG-rich ORFs in the tRNA(Gln)(CUG)-depleted sup70-65 mutant. This prediction was validated by demonstrating that luciferase expression in the mutant was 60% reduced by introducing multiple tandem CAG (but not CAA) codons into this ORF. In addition, the sup70-65 pseudohyphal phenotype was partly complemented by overexpressing CAA-decoding tRNA(Gln)(UUG), an inefficient wobble-decoder of CAG. We thus show that introducing codons decoded by a rare tRNA near the 5' end of an ORF can reduce eukaryote translational expression, and that the mutant tRNA(CUG)(Gln) constitutive pseudohyphal differentiation phenotype correlates strongly with reduced CAG decoding efficiency. PMID:23146061

  10. Three-Dimensional Algebraic Models of the tRNA Code and 12 Graphs for Representing the Amino Acids

    Marco V. José

    2014-08-01

    Full Text Available Three-dimensional algebraic models, also called Genetic Hotels, are developed to represent the Standard Genetic Code, the Standard tRNA Code (S-tRNA-C, and the Human tRNA code (H-tRNA-C. New algebraic concepts are introduced to be able to describe these models, to wit, the generalization of the 2n-Klein Group and the concept of a subgroup coset with a tail. We found that the H-tRNA-C displayed broken symmetries in regard to the S-tRNA-C, which is highly symmetric. We also show that there are only 12 ways to represent each of the corresponding phenotypic graphs of amino acids. The averages of statistical centrality measures of the 12 graphs for each of the three codes are carried out and they are statistically compared. The phenotypic graphs of the S-tRNA-C display a common triangular prism of amino acids in 10 out of the 12 graphs, whilst the corresponding graphs for the H-tRNA-C display only two triangular prisms. The graphs exhibit disjoint clusters of amino acids when their polar requirement values are used. We contend that the S-tRNA-C is in a frozen-like state, whereas the H-tRNA-C may be in an evolving state.

  11. Fluctuations between multiple EF-G-induced chimeric tRNA states during translocation on the ribosome

    Adio, Sarah; Senyushkina, Tamara; Peske, Frank; Fischer, Niels; Wintermeyer, Wolfgang; Rodnina, Marina V.

    2015-06-01

    The coupled translocation of transfer RNA and messenger RNA through the ribosome entails large-scale structural rearrangements, including step-wise movements of the tRNAs. Recent structural work has visualized intermediates of translocation induced by elongation factor G (EF-G) with tRNAs trapped in chimeric states with respect to 30S and 50S ribosomal subunits. The functional role of the chimeric states is not known. Here we follow the formation of translocation intermediates by single-molecule fluorescence resonance energy transfer. Using EF-G mutants, a non-hydrolysable GTP analogue, and fusidic acid, we interfere with either translocation or EF-G release from the ribosome and identify several rapidly interconverting chimeric tRNA states on the reaction pathway. EF-G engagement prevents backward transitions early in translocation and increases the fraction of ribosomes that rapidly fluctuate between hybrid, chimeric and posttranslocation states. Thus, the engagement of EF-G alters the energetics of translocation towards a flat energy landscape, thereby promoting forward tRNA movement.

  12. Autosomal-Recessive Mutations in the tRNA Splicing Endonuclease Subunit TSEN15 Cause Pontocerebellar Hypoplasia and Progressive Microcephaly.

    Breuss, Martin W; Sultan, Tipu; James, Kiely N; Rosti, Rasim O; Scott, Eric; Musaev, Damir; Furia, Bansri; Reis, André; Sticht, Heinrich; Al-Owain, Mohammed; Alkuraya, Fowzan S; Reuter, Miriam S; Abou Jamra, Rami; Trotta, Christopher R; Gleeson, Joseph G

    2016-07-01

    The tRNA splicing endonuclease is a highly evolutionarily conserved protein complex, involved in the cleavage of intron-containing tRNAs. In human it consists of the catalytic subunits TSEN2 and TSEN34, as well as the non-catalytic TSEN54 and TSEN15. Recessive mutations in the corresponding genes of the first three are known to cause pontocerebellar hypoplasia (PCH) types 2A-C, 4, and 5. Here, we report three homozygous TSEN15 variants that cause a milder version of PCH2. The affected individuals showed progressive microcephaly, delayed developmental milestones, intellectual disability, and, in two out of four cases, epilepsy. None, however, displayed the central visual failure seen in PCH case subjects where other subunits of the TSEN are mutated, and only one was affected by the extensive motor defects that are typical in other forms of PCH2. The three amino acid substitutions impacted the protein level of TSEN15 and the stoichiometry of the interacting subunits in different ways, but all resulted in an almost complete loss of in vitro tRNA cleavage activity. Taken together, our results demonstrate that mutations in any known subunit of the TSEN complex can cause PCH and progressive microcephaly, emphasizing the importance of its function during brain development. PMID:27392077

  13. Structure, Mechanism, and Specificity of a Eukaryal tRNA Restriction Enzyme Involved in Self-Nonself Discrimination

    Anupam K. Chakravarty

    2014-04-01

    Full Text Available tRNA restriction by anticodon nucleases underlies cellular stress responses and self-nonself discrimination in a wide range of taxa. Anticodon breakage inhibits protein synthesis, which, in turn, results in growth arrest or cell death. The eukaryal ribotoxin PaT secreted by Pichia acaciae inhibits growth of Saccharomyces cerevisiae via cleavage of tRNAGln(UUG. We find that recombinant PaT incises a synthetic tRNAGln(UUG stem-loop RNA by transesterification at a single site 3′ of the wobble uridine, yielding 2′,3′-cyclic phosphate and 5′-OH ends. Incision is suppressed by replacement of the wobble nucleobase with adenine or guanine. The crystal structure of PaT reveals a distinctive fold and active site, essential components of which are demonstrated by mutagenesis. Pichia acaciae evades self-toxicity via a distinctive intracellular immunity protein, ImmPaT, which binds PaT and blocks nuclease activity. Our results highlight the evolutionary diversity of tRNA restriction and immunity systems.

  14. The alpha-subunit of Leishmania F1 ATP synthase hydrolyzes ATP in presence of tRNA.

    Goswami, Srikanta; Adhya, Samit

    2006-07-14

    Import of tRNAs into the mitochondria of the kinetoplastid protozoon Leishmania requires the tRNA-dependent hydrolysis of ATP leading to the generation of membrane potential through the pumping of protons. Subunit RIC1 of the inner membrane RNA import complex is a bi-functional protein that is identical to the alpha-subunit of F1F0 ATP synthase and specifically binds to a subset (Type I) of importable tRNAs. We show that recombinant, purified RIC1 is a Type I tRNA-dependent ATP hydrolase. The activity was insensitive to oligomycin, sensitive to mutations within the import signal of the tRNA, and required the cooperative interaction between the ATP-binding and C-terminal domains of RIC1. The ATPase activity of the intact complex was inhibited by anti-RIC1 antibody, while knockdown of RIC1 in Leishmania tropica resulted in deficiency of the tRNA-dependent ATPase activity of the mitochondrial inner membrane. Moreover, RIC1 knockdown extracts failed to generate a membrane potential across reconstituted proteoliposomes, as shown by a rhodamine 123 uptake assay, but activity was restored by adding back purified RIC1. These observations identify RIC1 as a novel form of the F1 ATP synthase alpha-subunit that acts as the major energy transducer for tRNA import. PMID:16735512

  15. Defects in tRNA modification associated with neurological and developmental dysfunctions in Caenorhabditis elegans elongator mutants.

    Changchun Chen

    2009-07-01

    Full Text Available Elongator is a six subunit protein complex, conserved from yeast to humans. Mutations in the human Elongator homologue, hELP1, are associated with the neurological disease familial dysautonomia. However, how Elongator functions in metazoans, and how the human mutations affect neural functions is incompletely understood. Here we show that in Caenorhabditis elegans, ELPC-1 and ELPC-3, components of the Elongator complex, are required for the formation of the 5-carbamoylmethyl and 5-methylcarboxymethyl side chains of wobble uridines in tRNA. The lack of these modifications leads to defects in translation in C. elegans. ELPC-1::GFP and ELPC-3::GFP reporters are strongly expressed in a subset of chemosensory neurons required for salt chemotaxis learning. elpc-1 or elpc-3 gene inactivation causes a defect in this process, associated with a posttranscriptional reduction of neuropeptide and a decreased accumulation of acetylcholine in the synaptic cleft. elpc-1 and elpc-3 mutations are synthetic lethal together with those in tuc-1, which is required for thiolation of tRNAs having the 5'methylcarboxymethyl side chain. elpc-1; tuc-1 and elpc-3; tuc-1 double mutants display developmental defects. Our results suggest that, by its effect on tRNA modification, Elongator promotes both neural function and development.

  16. Human action recognition by extracting motion trajectories

    Fu, Yuwen; Yang, Shangpeng

    2015-07-01

    This paper proposes a novel human action recognition framework named Hidden Markov Model (HMM) based Hybrid Event Probability Sequence (HEPS), which can recognize unlabeled actions from videos. First, motion trajectories are effectively extracted using the centers of moving objects. Secondly, the HEPS is constructed using the trajectories and represents different human actions. Finally, the improved Particle Swarm Optimization (PSO) with inertia weight is introduced to recognize human actions using HMM. The proposed methods are evaluated on UCF Human Action Dataset and achieve 76.67% accurate rate. The comparative experiments results demonstrate that the HMM got superior results with HEPS and PSO.

  17. A Massively Parallel Face Recognition System

    Lahdenoja Olli

    2007-01-01

    Full Text Available We present methods for processing the LBPs (local binary patterns with a massively parallel hardware, especially with CNN-UM (cellular nonlinear network-universal machine. In particular, we present a framework for implementing a massively parallel face recognition system, including a dedicated highly accurate algorithm suitable for various types of platforms (e.g., CNN-UM and digital FPGA. We study in detail a dedicated mixed-mode implementation of the algorithm and estimate its implementation cost in the view of its performance and accuracy restrictions.

  18. A Massively Parallel Face Recognition System

    Ari Paasio

    2006-12-01

    Full Text Available We present methods for processing the LBPs (local binary patterns with a massively parallel hardware, especially with CNN-UM (cellular nonlinear network-universal machine. In particular, we present a framework for implementing a massively parallel face recognition system, including a dedicated highly accurate algorithm suitable for various types of platforms (e.g., CNN-UM and digital FPGA. We study in detail a dedicated mixed-mode implementation of the algorithm and estimate its implementation cost in the view of its performance and accuracy restrictions.

  19. RECOGNITION AND ASSESSMENT IN ACCOUNTANCY

    DIMA FLORIN CONSTANTIN

    2012-11-01

    Full Text Available The recognition and assessment of the component elements of the annual financial statements’ structures is crucial in order that the information released by them fulfils the qualitative characteristics and the reflected image is a “true and fair view”. Therefore, our approach takes into consideration the recognition and assessment methods for the component elements of the financial statements’ structures, as well as certain possible risks arising from the erroneous recognition or non-recognition of some of these elements.

  20. Forensic Face Recognition: A Survey

    Ali, Tauseef; Spreeuwers, Luuk; Veldhuis, Raymond; Quaglia, Adamo; Epifano, Calogera M.

    2012-01-01

    The improvements of automatic face recognition during the last 2 decades have disclosed new applications like border control and camera surveillance. A new application field is forensic face recognition. Traditionally, face recognition by human experts has been used in forensics, but now there is a

  1. 3D modelling and recognition

    Rodrigues, Marcos; Robinson, Alan; Alboul, Lyuba; Brink, Willie

    2006-01-01

    3D face recognition is an open field. In this paper we present a method for 3D facial recognition based on Principal Components Analysis. The method uses a relatively large number of facial measurements and ratios and yields reliable recognition. We also highlight our approach to sensor development for fast 3D model acquisition and automatic facial feature extraction.

  2. Projective Methods of Image Recognition

    Putyatin, Yevgeniy; Gorohovatsky, Vladimir; Gorohovatsky, Alexey; Peredriy, Elena

    2008-01-01

    We propose a method for image recognition on the base of projections. Radon transform gives an opportunity to map image into space of its projections. Projection properties allow constructing informative features on the base of moments that can be successfully used for invariant recognition. Offered approach gives about 91-97% of correct recognition.

  3. IRIS Based Human Recognition System

    Mansi Jhamb, Vinod Kumar Khera

    2011-04-01

    Full Text Available The paper explores iris recognition for personal identification and verification. In this paper a newiris recognition technique is proposed using (Scale Invariant Feature Transform SIFT. Imageprocessingalgorithms have been validated on noised real iris image database. The proposedinnovative technique is computationally effective as well as reliable in terms of recognition rates.

  4. 38 CFR 4.46 - Accurate measurement.

    2010-07-01

    ... 38 Pensions, Bonuses, and Veterans' Relief 1 2010-07-01 2010-07-01 false Accurate measurement. 4... RATING DISABILITIES Disability Ratings The Musculoskeletal System § 4.46 Accurate measurement. Accurate measurement of the length of stumps, excursion of joints, dimensions and location of scars with respect...

  5. Can blind persons accurately assess body size from the voice?

    Pisanski, Katarzyna; Oleszkiewicz, Anna; Sorokowska, Agnieszka

    2016-04-01

    Vocal tract resonances provide reliable information about a speaker's body size that human listeners use for biosocial judgements as well as speech recognition. Although humans can accurately assess men's relative body size from the voice alone, how this ability is acquired remains unknown. In this study, we test the prediction that accurate voice-based size estimation is possible without prior audiovisual experience linking low frequencies to large bodies. Ninety-one healthy congenitally or early blind, late blind and sighted adults (aged 20-65) participated in the study. On the basis of vowel sounds alone, participants assessed the relative body sizes of male pairs of varying heights. Accuracy of voice-based body size assessments significantly exceeded chance and did not differ among participants who were sighted, or congenitally blind or who had lost their sight later in life. Accuracy increased significantly with relative differences in physical height between men, suggesting that both blind and sighted participants used reliable vocal cues to size (i.e. vocal tract resonances). Our findings demonstrate that prior visual experience is not necessary for accurate body size estimation. This capacity, integral to both nonverbal communication and speech perception, may be present at birth or may generalize from broader cross-modal correspondences. PMID:27095264

  6. Human Lips-Contour Recognition and Tracing

    Md. Hasan Tareque

    2014-01-01

    Full Text Available Human-lip detection is an important criterion for many automated modern system in present day. Like computerized speech reading, face recognition etc. system can work more precisely if human-lip can detect accurately. There are many processes for detecting human-lip. In this paper an approach is developed so that the region of a human-lip can be detected, we called it lip contour. For this a region-based Active Contour Model (ACM is introduced with watershed segmentation. In this model we used global energy terms instead of local energy terms because, global energy gives better convergence rate for malicious environment. At the time of ACM initialization by using H8 based on Lyapunov stability theory, the system gives more accurate and stable result.

  7. Vehicle License Plate Recognition Syst

    Meenakshi,R. B. Dubey

    2012-12-01

    Full Text Available The vehicle license plate recognition system has greater efficiency for vehicle monitoring in automatic zone access control. This Plate recognition system will avoid special tags, since all vehicles possess a unique registration number plate. A number of techniques have been used for car plate characters recognition. This system uses neural network character recognition and pattern matching of characters as two character recognition techniques. In this approach multilayer feed-forward back-propagation algorithm is used. The performance of the proposed algorithm has been tested on several car plates and provides very satisfactory results.

  8. Audio-visual gender recognition

    Liu, Ming; Xu, Xun; Huang, Thomas S.

    2007-11-01

    Combining different modalities for pattern recognition task is a very promising field. Basically, human always fuse information from different modalities to recognize object and perform inference, etc. Audio-Visual gender recognition is one of the most common task in human social communication. Human can identify the gender by facial appearance, by speech and also by body gait. Indeed, human gender recognition is a multi-modal data acquisition and processing procedure. However, computational multimodal gender recognition has not been extensively investigated in the literature. In this paper, speech and facial image are fused to perform a mutli-modal gender recognition for exploring the improvement of combining different modalities.

  9. Vehicle License Plate Recognition System

    Meenakshi

    2012-12-01

    Full Text Available The vehicle license plate recognition system has greater efficiency for vehicle monitoring in automatic zone access control. This Plate recognition system will avoid special tags, since all vehicles possess a unique registration number plate. A number of techniques have been used for car plate characters recognition. This system uses neural network character recognition and pattern matching of characters as two character recognition techniques. In this approach multilayer feed-forward back-propagation algorithm is used. The performance of the proposed algorithm has been tested on several car plates and provides very satisfactory results.

  10. DWT BASED IRIS RECOGNITION

    MAYURI MEMANE

    2012-08-01

    Full Text Available The iris recognition is an emerging technology widely used due to various characteristics such as uniqueness,universal, stable, independent of genetics, acceptable etc. The recognition is carried out using discrete wavelet transform (DWT. It includes collection of iris database, carrying out preprocessing (includes separation ofpupil, normalization and feature extraction. Normalization includes polar to rectangular conversion. After this area of interest is selected from which features are extracted using DWT. It generates approximate, horizontal, vertical and diagonal coefficients. These are compared with the stored templates using hamming distance. If thetemplate is match with the stored one than the match ID is displayed. The unauthorized person is indicated by displaying ID equal to ‘00’

  11. Dysfunctions of Facial Emotion Recognition in Adult Neuropsychiatric Disorders: Influence on interpersonal difficulties

    Charles Kornreich

    2006-03-01

    Full Text Available Emotional facial expression (EFE accurate recognition is needed to ensure good interpersonal communication and relationship. Impaired recognition of emotional facial expressions has been described in many neuropsychiatric disorders. Neuronal circuits dysfunctions and/or inappropriate learning processes could explain these recognition difficulties. EFE decoding disturbances in adult neuropsychiatric disorders are reviewed. For some of these disorders, a correlation has been evidenced between poor recognition of EFE and interpersonal difficulties. Treatment of EFE dysfunctions seems possible but it is not yet known if such a treatment could improve the interpersonal life of patients with neuropsychiatric disorders.

  12. Iris Recognition Using Wavelet

    Khaliq Masood; Muhammad Younus Javed; Abdul Basit

    2013-01-01

    Biometric systems are getting more attention in the present era. Iris recognition is one of the most secure and authentic among the other biometrics and this field demands more authentic, reliable and fast algorithms to implement these biometric systems in real time. In this paper, an efficient localization technique is presented to identify pupil and iris boundaries using histogram of the iris image. Two small portions of iris have been used for polar transformation to reduce computational t...

  13. Automatic pattern recognition

    Petheram, R.J.

    1989-01-01

    In this thesis the author presents a new method for the location, extraction and normalisation of discrete objects found in digital images. The extraction is by means of sub-pixcel contour following around the object. The normalisation obtains and removes the information concerning size, orientation and location of the object within an image. Analyses of the results are carried out to determine the confidence in recognition of patterns, and methods of cross correlation of object descriptions ...

  14. Infrared face recognition

    Lee, Colin K.

    2004-01-01

    Approved for public release, distribution is unlimited This study continues a previous face recognition investigation using uncooled infrared technology. The database developed in an earlier study is further expanded to include 50 volunteers with 30 facial images from each subject. The automatic image reduction method reduces the pixel size of each image from 160 120 to 60 45 . The study reexamines two linear classification methods: the Principal Component Analysis (PCA) and Fisher ...

  15. Facial Expression Recognition

    Neeta Sarode; Prof. Shalini Bhatia

    2010-01-01

    Facial expression analysis is rapidly becoming an area of intense interest in computer science and human-computer interaction design communities. The most expressive way humans display emotions is through facial expressions. In this paper a method is implemented using 2D appearance-based local approach for the extraction of intransient facial features and recognition of four facial expressions. The algorithm implements Radial Symmetry Transform and further uses edge projection analysis for fe...

  16. Recognition of Teaching Excellence*

    Hammer, Dana; Piascik, Peggy; Medina, Melissa; Pittenger, Amy; Rose, Renee; Creekmore, Freddy; Soltis, Robert; Bouldin, Alicia; Schwarz, Lindsay; Scott, Steven

    2010-01-01

    The 2008-2009 Task Force for the Recognition of Teaching Excellence was charged by the AACP Council of Faculties Leadership to examine teaching excellence by collecting best practices from colleges and schools of pharmacy, evaluating the literature to identify evidence-based criteria for excellent teaching, and recommending appropriate means to acknowledge and reward teaching excellence. This report defines teaching excellence and discusses a variety of ways to assess it, including student, a...

  17. Techniques for automatic speech recognition

    Moore, R. K.

    1983-05-01

    A brief insight into some of the algorithms that lie behind current automatic speech recognition system is provided. Early phonetically based approaches were not particularly successful, due mainly to a lack of appreciation of the problems involved. These problems are summarized, and various recognition techniques are reviewed in the contect of the solutions that they provide. It is pointed out that the majority of currently available speech recognition equipments employ a "whole-word' pattern matching approach which, although relatively simple, has proved particularly successful in its ability to recognize speech. The concepts of time-normalizing plays a central role in this type of recognition process and a family of such algorithms is described in detail. The technique of dynamic time warping is not only capable of providing good performance for isolated word recognition, but how it is also extended to the recognition of connected speech (thereby removing one of the most severe limitations of early speech recognition equipment).

  18. PCA Based Rapid and Real Time Face Recognition Technique

    T R Chandrashekar

    2013-12-01

    Full Text Available Economical and efficient that is used in various applications is face Biometric which has been a popular form biometric system. Face recognition system is being a topic of research for last few decades. Several techniques are proposed to improve the performance of face recognition system. Accuracy is tested against intensity, distance from camera, and pose variance. Multiple face recognition is another subtopic which is under research now a day. Speed at which the technique works is a parameter under consideration to evaluate a technique. As an example a support vector machine performs really well for face recognition but the computational efficiency degrades significantly with increase in number of classes. Eigen Face technique produces quality features for face recognition but the accuracy is proved to be comparatively less to many other techniques. With increase in use of core processors in personal computers and application demanding speed in processing and multiple face detection and recognition system (for example an entry detection system in shopping mall or an industry, demand for such systems are cumulative as there is a need for automated systems worldwide. In this paper we propose a novel system of face recognition developed with C# .Net that can detect multiple faces and can recognize the faces parallel by utilizing the system resources and the core processors. The system is built around Haar Cascade based face detection and PCA based face recognition system with C#.Net. Parallel library designed for .Net is used to aide to high speed detection and recognition of the real time faces. Analysis of the performance of the proposed technique with some of the conventional techniques reveals that the proposed technique is not only accurate, but also is fast in comparison to other techniques.

  19. The Cm56 tRNA modification in archaea is catalyzed either by a specific 2′-O-methylase, or a C/D sRNP

    RENALIER, MARIE-HÉLÈNE; JOSEPH, NICOLE; GASPIN, CHRISTINE; THEBAULT, PATRICIA; MOUGIN, ANNIE

    2005-01-01

    We identified the first archaeal tRNA ribose 2′-O-methylase, aTrm56, belonging to the Cluster of Orthologous Groups (COG) 1303 that contains archaeal genes only. The corresponding protein exhibits a SPOUT S-adenosylmethionine (AdoMet)-dependent methyltransferase domain found in bacterial and yeast G18 tRNA 2′-O-methylases (SpoU, Trm3). We cloned the Pyrococcus abyssi PAB1040 gene belonging to this COG, expressed and purified the corresponding protein, and showed that in vitro, it specifically catalyzes the AdoMet-dependent 2′-O-ribose methylation of C at position 56 in tRNA transcripts. This tRNA methylation is present only in archaea, and the gene for this enzyme is present in all the archaeal genomes sequenced up to now, except in the crenarchaeon Pyrobaculum aerophilum. In this archaea, the C56 2′-O-methylation is provided by a C/D sRNP. Our work is the first demonstration that, within the same kingdom, two different mechanisms are used to modify the same nucleoside in tRNAs. PMID:15987815

  20. Role of the primer activation signal in tRNA annealing onto the HIV-1 genome studied by single-molecule FRET microscopy

    N. Beerens (Nancy); M.D.E. Jepsen (Mette); V. Nechyporuk-Zloy (Volodymyr); A.C. Krüger (Asger); J.-L. Darlix (Jean-Luc); J. Kjems (Jørgen); V. Birkedal (Victoria)

    2013-01-01

    textabstractHIV-1 reverse transcription is primed by a cellular tRNAlys3 molecule that binds to the primer binding site (PBS) in the genomic RNA. An additional interaction between the tRNA molecule and the primer activation signal (PAS) is thought to regulate the initiation of reverse transcription.

  1. A novel strategy for the identification of genomic islands by comparative analysis of the contents and contexts of tRNA sites in closely related bacteria.

    Ou, Hong-Yu; Chen, Ling-Ling; Lonnen, James; Chaudhuri, Roy R; Thani, Ali Bin; Smith, Rebecca; Garton, Natalie J; Hinton, Jay; Pallen, Mark; Barer, Michael R; Rajakumar, Kumar

    2006-01-01

    We devised software tools to systematically investigate the contents and contexts of bacterial tRNA and tmRNA genes, which are known insertion hotspots for genomic islands (GIs). The strategy, based on MAUVE-facilitated multigenome comparisons, was used to examine 87 Escherichia coli MG1655 tRNA and tmRNA genes and their orthologues in E.coli EDL933, E.coli CFT073 and Shigella flexneri Sf301. Our approach identified 49 GIs occupying approximately 1.7 Mb that mapped to 18 tRNA genes, missing 2 but identifying a further 30 GIs as compared with Islander [Y. Mantri and K. P. Williams (2004), Nucleic Acids Res., 32, D55-D58]. All these GIs had many strain-specific CDS, anomalous GC contents and/or significant dinucleotide biases, consistent with foreign origins. Our analysis demonstrated marked conservation of sequences flanking both empty tRNA sites and tRNA-associated GIs across all four genomes. Remarkably, there were only 2 upstream and 5 downstream deletions adjacent to the 328 loci investigated. In silico PCR analysis based on conserved flanking regions was also used to interrogate hotspots in another eight completely or partially sequenced E.coli and Shigella genomes. The tools developed are ideal for the analysis of other bacterial species and will lead to in silico and experimental discovery of new genomic islands. PMID:16414954

  2. Electrocardiogram (ECG) pattern modeling and recognition via deterministic learning

    Xunde DONG; Cong WANG; Junmin HU; Shanxing OU

    2014-01-01

    A method for electrocardiogram (ECG) pattern modeling and recognition via deterministic learning theory is presented in this paper. Instead of recognizing ECG signals beat-to-beat, each ECG signal which contains a number of heartbeats is recognized. The method is based entirely on the temporal features (i.e., the dynamics) of ECG patterns, which contains complete information of ECG patterns. A dynamical model is employed to demonstrate the method, which is capable of generating synthetic ECG signals. Based on the dynamical model, the method is shown in the following two phases:the identification (training) phase and the recognition (test) phase. In the identification phase, the dynamics of ECG patterns is accurately modeled and expressed as constant RBF neural weights through the deterministic learning. In the recognition phase, the modeling results are used for ECG pattern recognition. The main feature of the proposed method is that the dynamics of ECG patterns is accurately modeled and is used for ECG pattern recognition. Experimental studies using the Physikalisch-Technische Bundesanstalt (PTB) database are included to demonstrate the effectiveness of the approach.

  3. Suitable models for face geometry normalization in facial expression recognition

    Sadeghi, Hamid; Raie, Abolghasem A.

    2015-01-01

    Recently, facial expression recognition has attracted much attention in machine vision research because of its various applications. Accordingly, many facial expression recognition systems have been proposed. However, the majority of existing systems suffer from a critical problem: geometric variability. It directly affects the performance of geometric feature-based facial expression recognition approaches. Furthermore, it is a crucial challenge in appearance feature-based techniques. This variability appears in both neutral faces and facial expressions. Appropriate face geometry normalization can improve the accuracy of each facial expression recognition system. Therefore, this paper proposes different geometric models or shapes for normalization. Face geometry normalization removes geometric variability of facial images and consequently, appearance feature extraction methods can be accurately utilized to represent facial images. Thus, some expression-based geometric models are proposed for facial image normalization. Next, local binary patterns and local phase quantization are used for appearance feature extraction. A combination of an effective geometric normalization with accurate appearance representations results in more than a 4% accuracy improvement compared to several state-of-the-arts in facial expression recognition. Moreover, utilizing the model of facial expressions which have larger mouth and eye region sizes gives higher accuracy due to the importance of these regions in facial expression.

  4. Macromolecular recognition in the Protein Data Bank

    X-ray structures in the PDB illustrate both the specific recognition of two polypeptide chains in protein–protein complexes and dimeric proteins and their nonspecific interaction at crystal contacts. Crystal structures deposited in the Protein Data Bank illustrate the diversity of biological macromolecular recognition: transient interactions in protein–protein and protein–DNA complexes and permanent assemblies in homodimeric proteins. The geometric and physical chemical properties of the macromolecular interfaces that may govern the stability and specificity of recognition are explored in complexes and homodimers compared with crystal-packing interactions. It is found that crystal-packing interfaces are usually much smaller; they bury fewer atoms and are less tightly packed than in specific assemblies. Standard-size interfaces burying 1200–2000 Å2 of protein surface occur in protease–inhibitor and antigen–antibody complexes that assemble with little or no conformation changes. Short-lived electron-transfer complexes have small interfaces; the larger size of the interfaces observed in complexes involved in signal transduction and homodimers correlates with the presence of conformation changes, often implicated in biological function. Results of the CAPRI (critical assessment of predicted interactions) blind prediction experiment show that docking algorithms efficiently and accurately predict the mode of assembly of proteins that do not change conformation when they associate. They perform less well in the presence of large conformation changes and the experiment stimulates the development of novel procedures that can handle such changes

  5. Dance recognition system using lower body movement.

    Simpson, Travis T; Wiesner, Susan L; Bennett, Bradford C

    2014-02-01

    The current means of locating specific movements in film necessitate hours of viewing, making the task of conducting research into movement characteristics and patterns tedious and difficult. This is particularly problematic for the research and analysis of complex movement systems such as sports and dance. While some systems have been developed to manually annotate film, to date no automated way of identifying complex, full body movement exists. With pattern recognition technology and knowledge of joint locations, automatically describing filmed movement using computer software is possible. This study used various forms of lower body kinematic analysis to identify codified dance movements. We created an algorithm that compares an unknown move with a specified start and stop against known dance moves. Our recognition method consists of classification and template correlation using a database of model moves. This system was optimized to include nearly 90 dance and Tai Chi Chuan movements, producing accurate name identification in over 97% of trials. In addition, the program had the capability to provide a kinematic description of either matched or unmatched moves obtained from classification recognition. PMID:23676192

  6. Statistical feature extraction based iris recognition system

    ATUL BANSAL; RAVINDER AGARWAL; R K SHARMA

    2016-05-01

    Iris recognition systems have been proposed by numerous researchers using different feature extraction techniques for accurate and reliable biometric authentication. In this paper, a statistical feature extraction technique based on correlation between adjacent pixels has been proposed and implemented. Hamming distance based metric has been used for matching. Performance of the proposed iris recognition system (IRS) has been measured by recording false acceptance rate (FAR) and false rejection rate (FRR) at differentthresholds in the distance metric. System performance has been evaluated by computing statistical features along two directions, namely, radial direction of circular iris region and angular direction extending from pupil tosclera. Experiments have also been conducted to study the effect of number of statistical parameters on FAR and FRR. Results obtained from the experiments based on different set of statistical features of iris images show thatthere is a significant improvement in equal error rate (EER) when number of statistical parameters for feature extraction is increased from three to six. Further, it has also been found that increasing radial/angular resolution,with normalization in place, improves EER for proposed iris recognition system

  7. Face Behavior Recognition Through Support Vector Machines

    Haval A. Ahmed

    2016-01-01

    Full Text Available Communication between computers and humans has grown to be a major field of research. Facial Behavior Recognition through computer algorithms is a motivating and difficult field of research for establishing emotional interactions between humans and computers. Although researchers have suggested numerous methods of emotion recognition within the literature of this field, as yet, these research works have mainly focused on one method for their system output i.e. used one facial database for assessing their works. This may diminish the generalization method and additionally it might shrink the comparability range. A proposed technique for recognizing emotional expressions that are expressed through facial aspects of still images is presented. This technique uses the Support Vector Machines (SVM as a classifier of emotions. Substantive problems are considered such as diversity in facial databases, the samples included in each database, the number of facial expressions experienced an accurate method of extracting facial features, and the variety of structural models. After many experiments and the results of different models being compared, it is determined that this approach produces high recognition rates.

  8. Metacognitive processes in emotion recognition: are they different in adults with Asperger's disorder?

    Sawyer, Alyssa C P; Williamson, Paul; Young, Robyn

    2014-06-01

    Deficits in emotion recognition and social interaction characterize individuals with Asperger's Disorder (AS). Moreover they also appear to be less able to accurately use confidence to gauge their emotion recognition accuracy (i.e., metacognitive monitoring). The aim of this study was to extend this finding by considering both monitoring and control processes in emotion recognition among adults with AS. Those with AS were found to have difficulties acting on the basis of their metacognitive monitoring despite showing no deficits in their ability to discriminate accurate from inaccurate decisions. It is suggested that adults with AS have difficulties interacting socially because they are less able to assess when they are making accurate emotion recognition decisions despite having the capability to do so. PMID:24272525

  9. Eye Spacing Measurement for Facial Recognition

    Nixon, Mark

    1985-12-01

    Few approaches to automated facial recognition have employed geometric measurement of characteristic features of a human face. Eye spacing measurement has been identified as an important step in achieving this goal. Measurement of spacing has been made by application of the Hough transform technique to detect the instance of a circular shape and of an ellipsoidal shape which approximate the perimeter of the iris and both the perimeter of the sclera and the shape of the region below the eyebrows respectively. Both gradient magnitude and gradient direction were used to handle the noise contaminating the feature space. Results of this application indicate that measurement of the spacing by detection of the iris is the most accurate of these three methods with measurement by detection of the position of the eyebrows the least accurate. However, measurement by detection of the eyebrows' position is the least constrained method. Application of these techniques has led to measurement of a characteristic feature of the human face with sufficient accuracy to merit later inclusion in a full package for automated facial recognition.

  10. Variation in the Spacer Regions Separating tRNA Genes in Renibacterium salmoninarum Distinguishes Recent Clinical Isolates from the Same Location

    Alexander, Sarah M.; Grayson, T. Hilton; Chambers, Edel M.; Cooper, Lynne F.; Barker, Gavin A.; Gilpin, Martyn L.

    2001-01-01

    A means for distinguishing between clinical isolates of Renibacterium salmoninarum that is based on the PCR amplification of length polymorphisms in the tRNA intergenic spacer regions (tDNA-ILPs) was investigated. The method used primers specific to nucleotide sequences of R. salmoninarum tRNA genes and tRNA intergenic spacer regions that had been generated by using consensus tRNA gene primers. Twenty-one PCR products were sequenced from five isolates of R. salmoninarum from the United States, England, and Scotland, and four complete tRNA genes and spacer regions were identified. Sixteen specific PCR primers were designed and tested singly and in all possible pairwise combinations for their potential to discriminate between isolates from recent clinical outbreaks of bacterial kidney disease (BKD) in the United Kingdom. Fourteen of the isolates were cultured from kidney samples taken from fish displaying clinical signs of BKD on five farms, and some of the isolates came from the same farm and at the same time. The tDNA-ILP profiles separated 22 clinical isolates into nine groups and highlighted that some farms may have had more than one source of infection. The grouping of isolates improved on the discriminatory power of previously reported typing methods based on randomly amplified polymorphic DNA analysis and restriction fragment length profiles developed using insertion sequence IS994. Our method enabled us to make divisions between closely related clinical isolates of R. salmoninarum that have identical exact tandem repeat (ETR-A) loci, rRNA intergenic spacer sequences, and IS994 profiles. PMID:11136759

  11. Clues to tRNA Evolution from the Distribution of Class II tRNAs and Serine Codons in the Genetic Code.

    Bernhardt, Harold S

    2016-01-01

    We have previously proposed that tRNA(Gly) was the first tRNA and glycine was the first amino acid incorporated into the genetic code. The next two amino acids incorporated would have been the other two small hydrophilic amino acids serine and aspartic acid, which occurred through the duplication of the tRNA(Gly) sequence, followed by mutation of its anticodon by single C to U transition mutations, possibly through spontaneous deamination. Interestingly, however, tRNA(Ser) has a different structure than most other tRNAs, possessing a long variable arm; because of this tRNA(Ser) is classified as a class II tRNA. Also, serine codons are found not only in the bottom right-hand corner of the genetic code table next to those for glycine and aspartic acid, but also in the top row of the table, next to those for two of the most hydrophobic amino acids, leucine and phenylalanine. In the following, I propose that the class II tRNA structure of tRNA(Ser) and the arrangement of serine codons in the genetic code provide clues to the early evolution of tRNA and the genetic code. In addition, I address Di Giulio's recent criticism of our proposal that tRNA(Gly) was the first tRNA, and discuss how early peptides produced from a restricted amino acid alphabet of glycine, serine and aspartic acid might have possessed proteolytic activity, which is possibly important for the early recycling of amino acid monomers. PMID:26927183

  12. Engineering and Validation of a Vector for Concomitant Expression of Rare Transfer RNA (tRNA and HIV-1 nef Genes in Escherichia coli.

    Siti Aisyah Mualif

    Full Text Available Relative ease in handling and manipulation of Escherichia coli strains make them primary candidate to express proteins heterologously. Overexpression of heterologous genes that contain codons infrequently used by E. coli is related with difficulties such as mRNA instability, early termination of transcription and/or translation, deletions and/or misincorporation, and cell growth inhibition. These codon bias -associated problems are addressed by co-expressing ColE1-compatible, rare tRNA expressing helper plasmids. However, this approach has inadequacies, which we have addressed by engineering an expression vector that concomitantly expresses the heterologous protein of interest, and rare tRNA genes in E. coli. The expression vector contains three (argU, ileY, leuW rare tRNA genes and a useful multiple cloning site for easy in-frame cloning. To maintain the overall size of the parental plasmid vector, the rare tRNA genes replaced the non-essential DNA segments in the vector. The cloned gene is expressed under the control of T7 promoter and resulting recombinant protein has a C-terminal 6His tag for IMAC-mediated purification. We have evaluated the usefulness of this expression vector by expressing three HIV-1 genes namely HIV-1 p27 (nef, HIV-1 p24 (ca, and HIV-1 vif in NiCo21(DE3 E.coli and demonstrated the advantages of using expression vector that concomitantly expresses rare tRNA and heterologous genes.

  13. Variation in the spacer regions separating tRNA genes in Renibacterium salmoninarum distinguishes recent clinical isolates from the same location.

    Alexander, S M; Grayson, T H; Chambers, E M; Cooper, L F; Barker, G A; Gilpin, M L

    2001-01-01

    A means for distinguishing between clinical isolates of Renibacterium salmoninarum that is based on the PCR amplification of length polymorphisms in the tRNA intergenic spacer regions (tDNA-ILPs) was investigated. The method used primers specific to nucleotide sequences of R. salmoninarum tRNA genes and tRNA intergenic spacer regions that had been generated by using consensus tRNA gene primers. Twenty-one PCR products were sequenced from five isolates of R. salmoninarum from the United States, England, and Scotland, and four complete tRNA genes and spacer regions were identified. Sixteen specific PCR primers were designed and tested singly and in all possible pairwise combinations for their potential to discriminate between isolates from recent clinical outbreaks of bacterial kidney disease (BKD) in the United Kingdom. Fourteen of the isolates were cultured from kidney samples taken from fish displaying clinical signs of BKD on five farms, and some of the isolates came from the same farm and at the same time. The tDNA-ILP profiles separated 22 clinical isolates into nine groups and highlighted that some farms may have had more than one source of infection. The grouping of isolates improved on the discriminatory power of previously reported typing methods based on randomly amplified polymorphic DNA analysis and restriction fragment length profiles developed using insertion sequence IS994. Our method enabled us to make divisions between closely related clinical isolates of R. salmoninarum that have identical exact tandem repeat (ETR-A) loci, rRNA intergenic spacer sequences, and IS994 profiles. PMID:11136759

  14. Engineering and Validation of a Vector for Concomitant Expression of Rare Transfer RNA (tRNA) and HIV-1 nef Genes in Escherichia coli.

    Mualif, Siti Aisyah; Teow, Sin-Yeang; Omar, Tasyriq Che; Chew, Yik Wei; Yusoff, Narazah Mohd; Ali, Syed A

    2015-01-01

    Relative ease in handling and manipulation of Escherichia coli strains make them primary candidate to express proteins heterologously. Overexpression of heterologous genes that contain codons infrequently used by E. coli is related with difficulties such as mRNA instability, early termination of transcription and/or translation, deletions and/or misincorporation, and cell growth inhibition. These codon bias -associated problems are addressed by co-expressing ColE1-compatible, rare tRNA expressing helper plasmids. However, this approach has inadequacies, which we have addressed by engineering an expression vector that concomitantly expresses the heterologous protein of interest, and rare tRNA genes in E. coli. The expression vector contains three (argU, ileY, leuW) rare tRNA genes and a useful multiple cloning site for easy in-frame cloning. To maintain the overall size of the parental plasmid vector, the rare tRNA genes replaced the non-essential DNA segments in the vector. The cloned gene is expressed under the control of T7 promoter and resulting recombinant protein has a C-terminal 6His tag for IMAC-mediated purification. We have evaluated the usefulness of this expression vector by expressing three HIV-1 genes namely HIV-1 p27 (nef), HIV-1 p24 (ca), and HIV-1 vif in NiCo21(DE3) E.coli and demonstrated the advantages of using expression vector that concomitantly expresses rare tRNA and heterologous genes. PMID:26147991

  15. Iris Recognition using Mel-Fequency Cepstral Coefficient

    Shibli Nisar

    2014-03-01

    Full Text Available This paper proposes Iris feature extraction using Mel Frequency Cepstral Coefficient (MFCC. MFCC is originally used for speech and speaker recognition. The MFCC is applied in Iris recognition and the results obtained are very accurate and satisfactory. The system first takes the eye pattern of a person and after converting to 1D signal the MFCC is applied which extracts Iris features. The features are then compared with the features obtained in Enrollment phase, and decision is made after taking Euclidean distance.

  16. A Star Pattern Recognition Method Based on Decreasing Redundancy Matching

    Yao, Lu; Xiao-xiang, Zhang; Rong-yu, Sun

    2016-04-01

    During the optical observation of space objects, it is difficult to enable the background stars to get matched when the telescope pointing error and tracking error are significant. Based on the idea of decreasing redundancy matching, an effective recognition method for background stars is proposed in this paper. The simulative images under different conditions and the observed images are used to verify the proposed method. The experimental results show that the proposed method has raised the rate of recognition and reduced the time consumption, it can be used to match star patterns accurately and rapidly.

  17. A Neuromorphic System for Video Object Recognition

    Deepak eKhosla

    2014-11-01

    Full Text Available Automated video object recognition is a topic of emerging importance in both defense and civilian applications. This work describes an accurate and low-power neuromorphic architecture and system for real-time automated video object recognition. Our system, Neuormorphic Visual Understanding of Scenes (NEOVUS, is inspired by recent findings in computational neuroscience on feed-forward object detection and classification pipelines for processing and extracting relevant information from visual data. The NEOVUS architecture is inspired by the ventral (what and dorsal (where streams of the mammalian visual pathway and combines retinal processing, form-based and motion-based object detection, and convolutional neural nets based object classification. Our system was evaluated by the Defense Advanced Research Projects Agency (DARPA under the NEOVISION2 program on a variety of urban area video datasets collected from both stationary and moving platforms. The datasets are challenging as they include a large number of targets in cluttered scenes with varying illumination and occlusion conditions. The NEOVUS system was also mapped to commercially available off-the-shelf hardware. The dynamic power requirement for the system that includes a 5.6Mpixel retinal camera processed by object detection and classification algorithms at 30 frames per second was measured at 21.7 Watts (W, for an effective energy consumption of 5.4 nanoJoules (nJ per bit of incoming video. In a systematic evaluation of five different teams by DARPA on three aerial datasets, the NEOVUS demonstrated the best performance with the highest recognition accuracy and at least three orders of magnitude lower energy consumption than two independent state of the art computer vision systems. These unprecedented results show that the NEOVUS has the potential to revolutionize automated video object recognition towards enabling practical low-power and mobile video processing applications.

  18. Prokaryote phylogeny based on ribosomal proteins and aminoacyl tRNA synthetases by using the compositional distance approach

    WEI; Haibin; QI; Ji; HAO; Bailin

    2004-01-01

    In order to show that the newly developed K-string composition distance method,based on counting oligopeptide frequencies,for inferring phylogenetic relations of prokaryotes works equally well without requiring the whole proteome data,we used all ribosomal proteins and the set of aminoacyl tRNA synthetases for each species.The latter group has been known to yield inconsistent trees if used individually.Our trees are obtained without making any sequence alignment.Altogether 16 Archaea,105 Bacteria and 2 Eucarya are represented on the tree.Most of the lower branchings agree well with the latest,2003,Outline of the second edition of the Bergey's Manual of Systematic Bacteriology and the trees also suggest some relationships among higher taxa.

  19. ALKBH8-mediated formation of a novel diastereomeric pair of wobble nucleosides in mammalian tRNA

    van den Born, E.; Vagbo, C. B.; Songe-Moller, L.;

    2011-01-01

    Mammals have nine different homologues (ALKBH1-9) of the Escherichia coli DNA repair demethylase AlkB. ALKBH2 is a genuine DNA repair enzyme, but the in vivo function of the other ALKBH proteins has remained elusive. It was recently shown that ALKBH8 contains an additional transfer RNA ( tRNA......) methyltransferase domain, which generates the wobble nucleoside 5-methoxycarbonylmethyluridine (mcm(5)U) from its precursor 5-carboxymethyluridine (cm(5)U). In this study, we report that (R)- and (S)-5-methoxycarbonylhydroxymethyluridine (mchm(5)U), hydroxylated forms of mcm(5)U, are present in mammalian tRNA......(UCG)(Arg), and tRNA(UCC)(Gly), respectively, representing the first example of a diastereomeric pair of modified RNA nucleosides. Through in vitro and in vivo studies, we show that both diastereomers of mchm(5)U are generated from mcm(5)U, and that the AlkB domain of ALKBH8 specifically hydroxylates mcm(5)U into...

  20. Interaction of Ru(Ⅱ) Complex with Yeast tRNA Studied by Isothermal Titration Calorimetry

    徐宏; 刘敛洪; 刘志刚; 梁毅; 张鹏; 杜芬; 周兵瑞; 计亮年

    2005-01-01

    The interaction of metal complex with RNA has been studied by isothermal titration calorimetry (ITC) for the first time. ITC experiments show that complex [Ru(phen)2MPIP]2+ {phen= 1,10-phenanthroline, MP[P-2-(4-methylphenyl)imidazo[4,5-f]-1, 10-phenanthroline} interacts with yeast tRNA in terms of a model for a singleset of identical sites through intercalation, which is consistent with our previous observation obtained from spectroscopic methods, and this binding process was driven by a moderately favorable enthalpy decrease in combination with a moderately favorable entropy increase, suggesting that ITC is an effective method for deep studying the interactions of metal complexes with RNA.

  1. Pattern recognition of anatomical shapes in CT scans

    In medical image processing pattern recognition has become of major value in anatomical analysis and in computer aided information processing. Specifically, pattern recognition techniques simplify software development by means of which clinicians can manipulate anatomical relationships. As part of an overall CT pattern recognition system, a sequential edge tracking routine was devised together with a normalized Fourier descriptor analysis of identified shapes. A collection of shapes were extracted from CT scans of two patients and entered into an anatomic shape dictionary. This dictionary was employed in pattern matching experiments and in three-dimensional anatomical reconstruction. A sequential-edge tracking algorithm of high reliability, consistency, and image invariance, capable of utilizing heuristic and statistical rules, was demonstrated. Tests of pattern matching algorithms based on Fourier descriptors provided rapid and accurate body organ recognition of shapes extracted from de novo images using the shape dictionary. Results indicate that automated contour extraction and object recognition from cross-sectional images of human anatomy can be performed effectively, reliably, and rapidly. This abstract discusses an image processing environment that circumvents manual and subjective shape extraction, by substituting automatic and quantitative shape extraction, pattern matching and object recognition

  2. The defective expression of gtpbp3 related to tRNA modification alters the mitochondrial function and development of zebrafish.

    Chen, Danni; Li, Feng; Yang, Qingxian; Tian, Miao; Zhang, Zengming; Zhang, Qinghai; Chen, Ye; Guan, Min-Xin

    2016-08-01

    Human mitochondrial DNA (mtDNA) mutations have been associated with a wide spectrum of clinical abnormalities. However, nuclear modifier gene(s) modulate the phenotypic expression of pathogenic mtDNA mutations. In our previous investigation, we identified the human GTPBP3 related to mitochondrial tRNA modification, acting as a modifier to influence of deafness-associated mtDNA mutation. Mutations in GTPBP3 have been found to be associated with other human diseases. However, the pathophysiology of GTPBP3-associated disorders is still not fully understood. Here, we reported the generation and characterization of Gtpbp3 depletion zebrafish model using antisense morpholinos. Zebrafish gtpbp3 has three isoforms localized at mitochondria. Zebrafish gtpbp3 is expressed at various embryonic stages and in multiple tissues. In particular, the gtpbp3 was expressed more abundantly in adult zebrafish ovary and testis. The expression of zebrafish gtpbp3 can functionally restore the growth defects caused by the mss1/gtpbp3 mutation in yeast. A marked decrease of mitochondrial ATP generation accompanied by increased levels of apoptosis and reactive oxygen species were observed in gtpbp3 knockdown zebrafish embryos. The Gtpbp3 morphants exhibited defective in embryonic development including bleeding, melenin, oedema and curved tails within 5days post fertilization, as compared with uninjected controls. The co-injection of wild type gtpbp3 mRNA partially rescued these defects in Gtpbp3 morphants. These data suggest that zebrafish Gtpbp3 is a structural and functional homolog of human and yeast GTPBP3. The mitochondrial dysfunction caused by defective Gtpbp3 may alter the embryonic development in the zebrafish. In addition, this zebrafish model of mitochondrial disease may provide unique opportunities for studying defective tRNA modification, mitochondrial biogenesis, and pathophysiology of mitochondrial disorders. PMID:27184967

  3. Role of codon usage and tRNA changes in rat cytomegalovirus latency and (re)activation.

    Kanduc, Darja

    2016-06-01

    Herpesviruses can remain in their hosts by establishing a latent infection with a low pattern of viral gene expression. Passage from latency to reactivation may occur under particular conditions such as immunosuppressive treatments or during fetal development, and often is accompanied by heavy pathologic sequelae. To investigate the molecular basis underlying herpesvirus latency and (re)activation, codon usage of rat cytomegalovirus was comparatively analyzed with respect to the rat codon usage. Two major points stand out as follows: (i) six codons - GCG (Ala), CCG (Pro), CGG (Arg), CGC (Arg), TCG (Ser), and ACG (Thr) - are rare in rat genes and intensively used in rat cytomegalovirus coding sequences; (ii) in many instances, the codons seldom used by the host are clustered along viral sequences coding for single amino acid repeats such as poly-Ala and poly-Thr stretches. The results indicate that rare host codons and their iteration along viral sequences might represent major constraints that lock rat cytomegalovirus translation in its host during the viral latent phase. Consequently, the data also suggest a link between rat cytomegalovirus quiescence/activation and the functional tRNA coadaptation phenomenon. Indeed, increases in minor tRNA species corresponding to rare rat codons mark rat cell proliferation and might rescue difficult viral translational contexts. Ala isoaccepting-tRNA (CGC) is reported as an example. On the whole, the present findings may contribute to explain how the molecular mechanisms that normally control host gene expression can silence/(re)activate viral gene expression, and might address research toward new approaches in anti-viral therapeutics. PMID:26875974

  4. Global translational impacts of the loss of the tRNA modification t6A in yeast

    Patrick C. Thiaville

    2015-12-01

    Full Text Available The universal tRNA modification t6A is found at position 37 of nearly all tRNAs decoding ANN codons. The absence of t6A37 leads to severe growth defects in baker’s yeast, phenotypes similar to those caused by defects in mcm5s2U34 synthesis. Mutants in mcm5s2U34 can be suppressed by overexpression of tRNALysUUU, but we show t6A phenotypes could not be suppressed by expressing any individual ANN decoding tRNA, and t6A and mcm5s2U are not determinants for each other’s formation. Our results suggest that t6A deficiency, like mcm5s2U deficiency, leads to protein folding defects, and show that the absence of t6A led to stress sensitivities (heat, ethanol, salt and sensitivity to TOR pathway inhibitors. Additionally, L-homoserine suppressed the slow growth phenotype seen in t6A-deficient strains, and proteins aggregates and Advanced Glycation End-products (AGEs were increased in the mutants. The global consequences on translation caused by t6A absence were examined by ribosome profiling. Interestingly, the absence of t6A did not lead to global translation defects, but did increase translation initiation at upstream non-AUG codons and increased frame-shifting in specific genes. Analysis of codon occupancy rates suggests that one of the major roles of t6A is to homogenize the process of elongation by slowing the elongation rate at codons decoded by high abundance tRNAs and I34:C3 pairs while increasing the elongation rate of rare tRNAs and G34:U3 pairs. This work reveals that the consequences of t6A absence are complex and multilayered and has set the stage to elucidate the molecular basis of the observed phenotypes.

  5. Peptidyl transferase antibiotics perturb the relative positioning of the 3'-terminal adenosine of P/P'-site-bound tRNA and 23S rRNA in the ribosome

    Kirillov, S V; Porse, B T; Garrett, R A

    1999-01-01

    A range of antibiotic inhibitors that act within the peptidyl transferase center of the ribosome were examined for their capacity to perturb the relative positioning of the 3' end of P/P'-site-bound tRNA and the Escherichia coli ribosome. The 3'-terminal adenosines of deacylated tRNA and N......-ribosome complexes. It is concluded that the antibiotics perturb the relative positioning of the 3' end of the P/P'-site-bound tRNA and the peptidyl transferase loop region of 23S rRNA....

  6. Advances in Speech Recognition

    Neustein, Amy

    2010-01-01

    This volume is comprised of contributions from eminent leaders in the speech industry, and presents a comprehensive and in depth analysis of the progress of speech technology in the topical areas of mobile settings, healthcare and call centers. The material addresses the technical aspects of voice technology within the framework of societal needs, such as the use of speech recognition software to produce up-to-date electronic health records, not withstanding patients making changes to health plans and physicians. Included will be discussion of speech engineering, linguistics, human factors ana

  7. Recognition Using Regions

    Gu, Chunhui

    2012-01-01

    Multi-scale window scanning has been popular in object detection but it generalizes poorly to complex features (e.g. nonlinear SVM kernel), deformable objects (e.g. animals), and finer-grained tasks (e.g. segmentation). In contrast to that, regions are appealing as image primitives for recognition because: (1) they encode object shape and scale naturally; (2) they are only mildly affected by background clutter; and (3) they significantly reduce the set of possible object locations in images.I...

  8. Visual affect recognition

    Stathopoulou, I-O

    2010-01-01

    It is generally known that human faces, as well as body motions and gestures, provide a wealth of information about a person, such as age, race, sex and emotional state. This monograph primarily studies the perception of facial expression of emotion, and secondarily of motion and gestures, with the purpose of developing a fully automated visual affect recognition system for use in modes of human/computer interaction. The book begins with a survey of the literature on emotion perception, followed by a description of empirical studies conducted with human participants and the construction of a '

  9. Human activity recognition and prediction

    2016-01-01

    This book provides a unique view of human activity recognition, especially fine-grained human activity structure learning, human-interaction recognition, RGB-D data based action recognition, temporal decomposition, and causality learning in unconstrained human activity videos. The techniques discussed give readers tools that provide a significant improvement over existing methodologies of video content understanding by taking advantage of activity recognition. It links multiple popular research fields in computer vision, machine learning, human-centered computing, human-computer interaction, image classification, and pattern recognition. In addition, the book includes several key chapters covering multiple emerging topics in the field. Contributed by top experts and practitioners, the chapters present key topics from different angles and blend both methodology and application, composing a solid overview of the human activity recognition techniques. .

  10. Recent progress in fingerprint recognition

    2006-01-01

    Fingerprint recognition has been increasingly used to realize personal identification in civilian's daily life, such as ID card, fingerprints hard disk and so on. Great improvement has been achieved in the on-line fingerprint sensing technology and automatic fingerprint recognition algorithms. Various fingerprint recognition techniques, including fingerprint acquisition, classification, enhancement and matching, are highly improved. This paper overviews recent advances in fingerprint recognition and summarizes the algorithm proposed for every step with special focuses on the enhancement of low-quality fingerprints and the matching of the distorted fingerprint images. Both issues are believed to be significant and challenging tasks. In addition, we also discuss the common evaluation for the fingerprint recognition algorithm of the Fingerprint Verification Competition 2004 (FVC2004) and the Fingerprint Vendor Technology Evaluation 2003 (FpVTE2003), based on which we could measure the performance of the recognition algorithm objectively and uniformly.

  11. Monocular SLAM Supported Object Recognition

    Pillai, Sudeep; Leonard, John,

    2015-01-01

    In this work, we develop a monocular SLAM-aware object recognition system that is able to achieve considerably stronger recognition performance, as compared to classical object recognition systems that function on a frame-by-frame basis. By incorporating several key ideas including multi-view object proposals and efficient feature encoding methods, our proposed system is able to detect and robustly recognize objects in its environment using a single RGB camera in near-constant time. Through e...

  12. Embedded Systems for Iris Recognition

    Anushree S. Patil; Sushil M. Rajbhoj

    2015-01-01

    Iris Recognition increasingly used method of biometric authentication that involves pattern-recognition techniques of images of irides to uniquely identify a person. In this paper, IRIS biometrics has been chosen for implementation due to the reduced error rates and the robustness their algorithms provide. The goal of this paper is to design a detached system, to implement a working prototype of the techniques and methods used for iris recognition. A powerful ARM7TDMI-S core based...

  13. Speech recognition in university classrooms

    Wald, Mike; Bain, Keith; Basson, Sara H

    2002-01-01

    The LIBERATED LEARNING PROJECT (LLP) is an applied research project studying two core questions: 1) Can speech recognition (SR) technology successfully digitize lectures to display spoken words as text in university classrooms? 2) Can speech recognition technology be used successfully as an alternative to traditional classroom notetaking for persons with disabilities? This paper addresses these intriguing questions and explores the underlying complex relationship between speech recognition te...

  14. Forensic Face Recognition: A Survey

    Ali, Tauseef; Veldhuis, Raymond; Spreeuwers, Luuk

    2010-01-01

    Beside a few papers which focus on the forensic aspects of automatic face recognition, there is not much published about it in contrast to the literature on developing new techniques and methodologies for biometric face recognition. In this report, we review forensic facial identification which is the forensic experts‟ way of manual facial comparison. Then we review famous works in the domain of forensic face recognition. Some of these papers describe general trends in forensics [1], guidelin...

  15. Innovative Technique for Character Recognition

    Sumant Raj Chauhan; Punit Soni

    2010-01-01

    Development of OCRs for Indian script is an active area of activity today. Optical character recognition (OCR) is the mechanical or electronic translation of images of handwritten, typewritten or printed text (usually captured by a scanner) into machine-editable text. In simple words OCR is a visual recognition process that turns printed or written text into an electronic character based file. OCR is a field of research in pattern recognition, artificial intelligence and machine vision. India...

  16. Information theory and pattern recognition

    Daemi, M.F.

    1990-01-01

    This thesis presents an account of an investigation into the use of information theory measures in pattern recognition problems. The objectives were firstly to determine the information content of the set of representations of an input image which are found at the output of an array of sensors; secondly to assess the information which may be used to allocate different patterns to appropriate classes in order to provide a means of recognition; and thirdly to assess the recognition capability o...

  17. Techniques in Facial Expression Recognition

    Avinash Prakash Pandhare; Umesh Balkrishna Chavan

    2016-01-01

    Facial expression recognition is gaining widespread importance as the applications related to Human – Computer interactions are increasing. This paper mentions various techniques and approaches that have been used in the field of facial expression recognition. Facial expression recognition takes place in various stages and these stages have been implemented by various approaches. Viola and Jones for face detection, Gabor filters for feature extraction, SVM classifiers for classifi...

  18. Markov Models for Handwriting Recognition

    Plotz, Thomas

    2011-01-01

    Since their first inception, automatic reading systems have evolved substantially, yet the recognition of handwriting remains an open research problem due to its substantial variation in appearance. With the introduction of Markovian models to the field, a promising modeling and recognition paradigm was established for automatic handwriting recognition. However, no standard procedures for building Markov model-based recognizers have yet been established. This text provides a comprehensive overview of the application of Markov models in the field of handwriting recognition, covering both hidden

  19. Study of Face Recognition Techniques

    Sangeeta Kaushik

    2014-12-01

    Full Text Available A study of both face recognition and detection techniques is carried out using the algorithms like Principal Component Analysis (PCA, Kernel Principal Component Analysis (KPCA, Linear Discriminant Analysis (LDA and Line Edge Map (LEM. These algorithms show different rates of accuracy under different conditions. The automatic recognition of human faces presents a challenge to the pattern recognition community. Typically, human faces are different in shapes with minor similarity from person to person. Furthermore, lighting condition changes, facial expressions and pose variations further complicate the face recognition task as one of the difficult problems in pattern analysis.

  20. A SURVEY ON FACE RECOGNITION

    R.VINODINI

    2014-02-01

    Full Text Available Face recognition is one of the most emerging and popular biometric authentication of a person, it presents a challenging problem in the field of image analysis and computer vision. Though there are various biometric traits such as iris, fingerprint and palm print etc., we focused on face recognition as it is socially acceptable and reliable. Here user identity plays a very important role to uniquely verify or authenticate the individual person. Many techniques were implemented in face recognition all having their respective pros and cons. In this paper, we presented an overview of face recognition techniques and its applications.

  1. Retina vascular network recognition

    Tascini, Guido; Passerini, Giorgio; Puliti, Paolo; Zingaretti, Primo

    1993-09-01

    The analysis of morphological and structural modifications of the retina vascular network is an interesting investigation method in the study of diabetes and hypertension. Normally this analysis is carried out by qualitative evaluations, according to standardized criteria, though medical research attaches great importance to quantitative analysis of vessel color, shape and dimensions. The paper describes a system which automatically segments and recognizes the ocular fundus circulation and micro circulation network, and extracts a set of features related to morphometric aspects of vessels. For this class of images the classical segmentation methods seem weak. We propose a computer vision system in which segmentation and recognition phases are strictly connected. The system is hierarchically organized in four modules. Firstly the Image Enhancement Module (IEM) operates a set of custom image enhancements to remove blur and to prepare data for subsequent segmentation and recognition processes. Secondly the Papilla Border Analysis Module (PBAM) automatically recognizes number, position and local diameter of blood vessels departing from optical papilla. Then the Vessel Tracking Module (VTM) analyses vessels comparing the results of body and edge tracking and detects branches and crossings. Finally the Feature Extraction Module evaluates PBAM and VTM output data and extracts some numerical indexes. Used algorithms appear to be robust and have been successfully tested on various ocular fundus images.

  2. Radically enhanced molecular recognition

    Trabolsi, Ali

    2009-12-17

    The tendency for viologen radical cations to dimerize has been harnessed to establish a recognition motif based on their ability to form extremely strong inclusion complexes with cyclobis(paraquat-p-phenylene) in its diradical dicationic redox state. This previously unreported complex involving three bipyridinium cation radicals increases the versatility of host-guest chemistry, extending its practice beyond the traditional reliance on neutral and charged guests and hosts. In particular, transporting the concept of radical dimerization into the field of mechanically interlocked molecules introduces a higher level of control within molecular switches and machines. Herein, we report that bistable and tristable [2]rotaxanes can be switched by altering electrochemical potentials. In a tristable [2]rotaxane composed of a cyclobis(paraquat-p-phenylene) ring and a dumbbell with tetrathiafulvalene, dioxynaphthalene and bipyridinium recognition sites, the position of the ring can be switched. On oxidation, it moves from the tetrathiafulvalene to the dioxynaphthalene, and on reduction, to the bipyridinium radical cation, provided the ring is also reduced simultaneously to the diradical dication. © 2010 Macmillan Publishers Limited. All rights reserved.

  3. The SPECIES and ORGANISMS Resources for Fast and Accurate Identification of Taxonomic Names in Text

    Pafilis, Evangelos; Pletscher-Frankild, Sune; Fanini, Lucia;

    2013-01-01

    The exponential growth of the biomedical literature is making the need for efficient, accurate text-mining tools increasingly clear. The identification of named biological entities in text is a central and difficult task. We have developed an efficient algorithm and implementation of a dictionary......-based approach to named entity recognition, which we here use to identify names of species and other taxa in text. The tool, SPECIES, is more than an order of magnitude faster and as accurate as existing tools. The precision and recall was assessed both on an existing gold-standard corpus and on a new corpus of...

  4. Technical trend of OCR and recognition technology

    This book is comprised of nine chapters, which are introduction of optical character reader, the history and development of OCR, foundation of character recognition technology, print letter recognition, script character recognition with stroke matching method, On-line character recognition on summary of character recognition of on-line script, the ways of on-line script and on-line Hangeul recognition with syntactic analysis, construction of character recognition system and formation of Hangeul for character recognition. This book describes character recognition technology with various technique of optical character reader.

  5. Mandarin Digits Speech Recognition Using Support Vector Machines

    XIE Xiang; KUANG Jing-ming

    2005-01-01

    A method of applying support vector machine (SVM) in speech recognition was proposed, and a speech recognition system for mandarin digits was built up by SVMs. In the system, vectors were linearly extracted from speech feature sequence to make up time-aligned input patterns for SVM, and the decisions of several 2-class SVM classifiers were employed for constructing an N-class classifier. Four kinds of SVM kernel functions were compared in the experiments of speaker-independent speech recognition of mandarin digits. And the kernel of radial basis function has the highest accurate rate of 99.33%, which is better than that of the baseline system based on hidden Markov models (HMM) (97.08%). And the experiments also show that SVM can outperform HMM especially when the samples for learning were very limited.

  6. Bus Passenger Recognition and Track of Video Sequence

    Donghua Zhou

    2013-06-01

    Full Text Available Study on bus passenger recognition and track of video sequence is a research aiming at realizing making a statistics on passenger flow volume of bus, which not only helps traffic services center rationally schedule vehicles, but also can avoid overload. The system makes machine vision technology and digital image processing technique applied in customer counting of bus. The key questions in the study include effective collection of video image, effective extraction of moving object in sequence images, recognition of moving targets, trace and count of moving objects. The paper makes deep analysis on relevant technology from the perspective of the theory and practical application of the algorithm, and the study makes achievements. The theoretical algorithm for the study on bus passenger recognition and track of video sequence is distinctive. The practical experiments indicate that the system can satisfy the real-time requirements, and can accurately make statistics on the number of passengers, which has great application value.

  7. The Legal Recognition of Sign Languages

    De Meulder, Maartje

    2015-01-01

    This article provides an analytical overview of the different types of explicit legal recognition of sign languages. Five categories are distinguished: constitutional recognition, recognition by means of general language legislation, recognition by means of a sign language law or act, recognition by means of a sign language law or act including…

  8. Iris Recognition Using Wavelet

    Khaliq Masood

    2013-08-01

    Full Text Available Biometric systems are getting more attention in the present era. Iris recognition is one of the most secure and authentic among the other biometrics and this field demands more authentic, reliable and fast algorithms to implement these biometric systems in real time. In this paper, an efficient localization technique is presented to identify pupil and iris boundaries using histogram of the iris image. Two small portions of iris have been used for polar transformation to reduce computational time and to increase the efficiency of the system. Wavelet transform is used for feature vector generation. Rotation of iris is compensated without shifts in the iris code. System is tested on Multimedia University Iris Database and results show that proposed system has encouraging performance.

  9. Recognition Using Hybrid Classifiers.

    Osadchy, Margarita; Keren, Daniel; Raviv, Dolev

    2016-04-01

    A canonical problem in computer vision is category recognition (e.g., find all instances of human faces, cars etc., in an image). Typically, the input for training a binary classifier is a relatively small sample of positive examples, and a huge sample of negative examples, which can be very diverse, consisting of images from a large number of categories. The difficulty of the problem sharply increases with the dimension and size of the negative example set. We propose to alleviate this problem by applying a "hybrid" classifier, which replaces the negative samples by a prior, and then finds a hyperplane which separates the positive samples from this prior. The method is extended to kernel space and to an ensemble-based approach. The resulting binary classifiers achieve an identical or better classification rate than SVM, while requiring far smaller memory and lower computational complexity to train and apply. PMID:26959677

  10. Automatic Speaker Recognition System

    Parul,R. B. Dubey

    2012-12-01

    Full Text Available Spoken language is used by human to convey many types of information. Primarily, speech convey message via words. Owing to advanced speech technologies, people's interactions with remote machines, such as phone banking, internet browsing, and secured information retrieval by voice, is becoming popular today. Speaker verification and speaker identification are important for authentication and verification in security purpose. Speaker identification methods can be divided into text independent and text-dependent. Speaker recognition is the process of automatically recognizing speaker voice on the basis of individual information included in the input speech waves. It consists of comparing a speech signal from an unknown speaker to a set of stored data of known speakers. This process recognizes who has spoken by matching input signal with pre- stored samples. The work is focussed to improve the performance of the speaker verification under noisy conditions.

  11. Forensic Face Recognition: A Survey

    Ali, Tauseef; Veldhuis, Raymond; Spreeuwers, Luuk

    2010-01-01

    Beside a few papers which focus on the forensic aspects of automatic face recognition, there is not much published about it in contrast to the literature on developing new techniques and methodologies for biometric face recognition. In this report, we review forensic facial identification which is t

  12. Pattern Recognition by Combined Invariants

    WANG Xiaohong; ZHAO Rongchun

    2001-01-01

    A feature-based recognition of objectsor patterns independent of their position, size, orien-tation and other variations has been the goal of muchrecent research. The existing approaches to invarianttwo-dimensional pattern recognition are useless whenpattern is blurred. In this paper, we present a novelpattern recognition system which can solve the prob-lem by using combined invariants as image features.The classification technique we choose for our systemis weighted normalized cross correlation. The mean ofthe intraclass standard deviations of the kth featureover the total number of prototypes for each class isused as a weighting factor during the classification pro-cess to improve recognition accuracy. The feasibilityof our pattern recognition system and the invarianceof the combined features with respect to translation,scaling, rotation and blurring are approved by numer-ical experiments on head images.

  13. Optimizing Face Recognition Using PCA

    Manal Abdullah

    2012-04-01

    Full Text Available Principle Component Analysis PCA is a classical feature extraction and data representation technique widely used in pattern recognition. It is one of the most successful techniques in face recognition. But it has drawback of high computational especially for big size database. This paper conducts a study to optimize the time complexity of PCA (eigenfaces that does not affects the recognition performance. The authorsminimize the participated eigenvectors which consequently decreases the computational time. A comparison is done to compare the differences between the recognition time in the original algorithm and in the enhanced algorithm. The performance of the original and the enhanced proposed algorithm is tested on face94 face database. Experimental results show that the recognition time is reduced by 35% by applying our proposed enhanced algorithm. DET Curves are used to illustrate the experimental results.

  14. Human vision inspired framework for facial expressions recognition

    R. A. Khan; Meyer, A.; Konik, Hubert; Bouakaz, Saïda

    2012-01-01

    We present a novel human vision inspired framework that can recognize facial expressions very efficiently and accurately. We propose to computationally process small, salient region of the face to extract features as it happens in human vision. To determine which facial region(s) is perceptually salient for a particular expression, we conducted a psycho-visual experimental study with an eye-tracker. A novel feature space conducive for recognition task is proposed, which is created by extracti...

  15. Laboratory Building for Accurate Determination of Plutonium

    2008-01-01

    <正>The accurate determination of plutonium is one of the most important assay techniques of nuclear fuel, also the key of the chemical measurement transfer and the base of the nuclear material balance. An

  16. Elongation in translation as a dynamic interaction among the ribosome, tRNA, and elongation factors EF-G and EF-Tu.

    Agirrezabala, Xabier; Frank, Joachim

    2009-08-01

    The ribosome is a complex macromolecular machine that translates the message encoded in the messenger RNA and synthesizes polypeptides by linking the individual amino acids carried by the cognate transfer RNAs (tRNAs). The protein elongation cycle, during which the tRNAs traverse the ribosome in a coordinated manner along a path of more than 100 A, is facilitated by large-scale rearrangements of the ribosome. These rearrangements go hand in hand with conformational changes of tRNA as well as elongation factors EF-Tu and EF-G - GTPases that catalyze tRNA delivery and translocation, respectively. This review focuses on the structural data related to the dynamics of the ribosomal machinery, which are the basis, in conjunction with existing biochemical, kinetic, and fluorescence resonance energy transfer data, of our knowledge of the decoding and translocation steps of protein elongation. PMID:20025795

  17. Defective i6A37 modification of mitochondrial and cytosolic tRNAs results from pathogenic mutations in TRIT1 and its substrate tRNA.

    John W Yarham

    2014-06-01

    Full Text Available Identifying the genetic basis for mitochondrial diseases is technically challenging given the size of the mitochondrial proteome and the heterogeneity of disease presentations. Using next-generation exome sequencing, we identified in a patient with severe combined mitochondrial respiratory chain defects and corresponding perturbation in mitochondrial protein synthesis, a homozygous p.Arg323Gln mutation in TRIT1. This gene encodes human tRNA isopentenyltransferase, which is responsible for i6A37 modification of the anticodon loops of a small subset of cytosolic and mitochondrial tRNAs. Deficiency of i6A37 was previously shown in yeast to decrease translational efficiency and fidelity in a codon-specific manner. Modelling of the p.Arg323Gln mutation on the co-crystal structure of the homologous yeast isopentenyltransferase bound to a substrate tRNA, indicates that it is one of a series of adjacent basic side chains that interact with the tRNA backbone of the anticodon stem, somewhat removed from the catalytic center. We show that patient cells bearing the p.Arg323Gln TRIT1 mutation are severely deficient in i6A37 in both cytosolic and mitochondrial tRNAs. Complete complementation of the i6A37 deficiency of both cytosolic and mitochondrial tRNAs was achieved by transduction of patient fibroblasts with wild-type TRIT1. Moreover, we show that a previously-reported pathogenic m.7480A>G mt-tRNASer(UCN mutation in the anticodon loop sequence A36A37A38 recognised by TRIT1 causes a loss of i6A37 modification. These data demonstrate that deficiencies of i6A37 tRNA modification should be considered a potential mechanism of human disease caused by both nuclear gene and mitochondrial DNA mutations while providing insight into the structure and function of TRIT1 in the modification of cytosolic and mitochondrial tRNAs.

  18. Secondary structure and feature of mitochondrial tRNA genes of the Ussurian tube-nosed bat Murina ussuriensis (Chiroptera: Vespertilionidae)

    Kwang Bae Yoon; Yung Chul Park

    2015-01-01

    The complete mitogenome (NC_021119) of the Ussurian tube-nosed bat Murina ussuriensis (Chiroptera: Vespertilionidae) was annotated and characterized in our recent publication (http://www.ncbi.nlm.nih.gov/nuccore/NC_021119). Here we provide additional information on methods in detail for obtaining the complete sequence of M. ussuriensis mitogenome. In addition, we describe characteristics of 22 tRNA genes and secondary structure and feature of 22 tRNAs of M. ussuriensis mitogenome.

  19. Secondary structure and feature of mitochondrial tRNA genes of the Ussurian tube-nosed bat Murina ussuriensis (Chiroptera: Vespertilionidae

    Kwang Bae Yoon

    2015-09-01

    Full Text Available The complete mitogenome (NC_021119 of the Ussurian tube-nosed bat Murina ussuriensis (Chiroptera: Vespertilionidae was annotated and characterized in our recent publication (http://www.ncbi.nlm.nih.gov/nuccore/NC_021119. Here we provide additional information on methods in detail for obtaining the complete sequence of M. ussuriensis mitogenome. In addition, we describe characteristics of 22 tRNA genes and secondary structure and feature of 22 tRNAs of M. ussuriensis mitogenome.

  20. Decreased aminoacylation in pathology-related mutants of mitochondrial tRNATyr is associated with structural perturbations in tRNA architecture

    Bonnefond, Luc; Florentz, Catherine; GIEGÉ, RICHARD; Rudinger-Thirion, Joëlle

    2008-01-01

    A growing number of human pathologies are ascribed to mutations in mitochondrial tRNA genes. Here, we report biochemical investigations on three mt-tRNATyr molecules with point substitutions associated with diseases. The mutations occur in the atypical T- and D-loops at positions homologous to those involved in the tertiary interaction network of canonical tRNAs. They do not correspond to tyrosine identity positions and likely do not contact the mitochondrial tyrosyl-tRNA synthetase during th...

  1. An uncommon clinical presentation of relapsing dilated cardiomyopathy with identification of sequence variations in MYNPC3, KCNH2 and mitochondrial tRNA cysteine

    Guillen Sacoto, Maria J.; Chapman, Kimberly A; Deneen Heath; Mary Beth Seprish; Zand, Dina J.

    2015-01-01

    We describe a young girl with dilated cardiomyopathy, long QT syndrome, and possible energy deficiency. Two major sequence changes were identified by whole exome sequencing (WES) and mitochondrial DNA analysis that were interpreted as potentially causative. Changes were identified in the KCNH2 gene and mitochondrial tRNA for cysteine. A variation was also seen in MYPBC3. Since the launch of WES as a clinically available technology in 2010, there has been concern regarding the identification o...

  2. Engineering and Validation of a Vector for Concomitant Expression of Rare Transfer RNA (tRNA) and HIV-1 nef Genes in Escherichia coli

    Mualif, Siti Aisyah; Teow, Sin-Yeang; Omar, Tasyriq Che; Chew, Yik Wei; Yusoff, Narazah Mohd; Syed A. Ali

    2015-01-01

    Relative ease in handling and manipulation of Escherichia coli strains make them primary candidate to express proteins heterologously. Overexpression of heterologous genes that contain codons infrequently used by E. coli is related with difficulties such as mRNA instability, early termination of transcription and/or translation, deletions and/or misincorporation, and cell growth inhibition. These codon bias -associated problems are addressed by co-expressing ColE1-compatible, rare tRNA expres...

  3. Vision-based Recognition of Activities by a Humanoid Robot

    Mounîm A. El-Yacoubi

    2015-12-01

    Full Text Available We present an autonomous assistive robotic system for human activity recognition from video sequences. Due to the large variability inherent to video capture from a non-fixed robot (as opposed to a fixed camera, as well as the robot’s limited computing resources, implementation has been guided by robustness to this variability and by memory and computing speed efficiency. To accommodate motion speed variability across users, we encode motion using dense interest point trajectories. Our recognition model harnesses the dense interest point bag-of-words representation through an intersection kernel-based SVM that better accommodates the large intra-class variability stemming from a robot operating in different locations and conditions. To contextually assess the engine as implemented in the robot, we compare it with the most recent approaches of human action recognition performed on public datasets (non-robot-based, including a novel approach of our own that is based on a two-layer SVM-hidden conditional random field sequential recognition model. The latter’s performance is among the best within the recent state of the art. We show that our robot-based recognition engine, while less accurate than the sequential model, nonetheless shows good performances, especially given the adverse test conditions of the robot, relative to those of a fixed camera.

  4. Iris Recognition System using canny edge detection for Biometric Identification

    Bhawna Chouhan

    2011-01-01

    Full Text Available biometric system provides automatic identification of an individual based on a unique feature or characteristic possessed by the individual. Iris recognition is regarded as the most reliable and accurate biometric identification system available. Most commercial iris recognition systems use patented algorithms developed by Daugman, and these algorithms are able to produce perfect recognition rates. Especially it focuses on image segmentation and feature extraction for iris recognition process. The performance of iris recognition system highly depends on edge detection. The Canny Edge Detector is one of the most commonly used image processing tools, detecting edges in a very robust manner. For instance, even an effective feature extraction method would not be able to obtain useful information from an iris image that is not segmented properly. This paper presents a straightforward approach for segmenting the iris patterns. The used method determines an automated global threshold and the pupil center. Experiments are performed using iris images obtained from CASIA database (Institute of Automation, Chinese Academy of Sciences and Matlab application for its easy and efficient tools in image manipulation.

  5. Identification and sequence analysis of metazoan tRNA 3'-end processing enzymes tRNase Zs.

    Zhikang Wang

    Full Text Available tRNase Z is the endonuclease responsible for removing the 3'-trailer sequences from precursor tRNAs, a prerequisite for the addition of the CCA sequence. It occurs in the short (tRNase Z(S and long (tRNase Z(L forms. Here we report the identification and sequence analysis of candidate tRNase Zs from 81 metazoan species. We found that the vast majority of deuterostomes, lophotrochozoans and lower metazoans have one tRNase Z(S and one tRNase Z(L genes, whereas ecdysozoans possess only a single tRNase Z(L gene. Sequence analysis revealed that in metazoans, a single nuclear tRNase Z(L gene is likely to encode both the nuclear and mitochondrial forms of tRNA 3'-end processing enzyme through mechanisms that include alternative translation initiation from two in-frame start codons and alternative splicing. Sequence conservation analysis revealed a variant PxKxRN motif, PxPxRG, which is located in the N-terminal region of tRNase Z(Ss. We also identified a previously unappreciated motif, AxDx, present in the C-terminal region of both tRNase Z(Ss and tRNase Z(Ls. The AxDx motif consisting mainly of a very short loop is potentially close enough to form hydrogen bonds with the loop containing the PxKxRN or PxPxRG motif. Through complementation analysis, we demonstrated the likely functional importance of the AxDx motif. In conclusion, our analysis supports the notion that in metazoans a single tRNase Z(L has evolved to participate in both nuclear and mitochondrial tRNA 3'-end processing, whereas tRNase Z(S may have evolved new functions. Our analysis also unveils new evolutionarily conserved motifs in tRNase Zs, including the C-terminal AxDx motif, which may have functional significance.

  6. Kernel learning algorithms for face recognition

    Li, Jun-Bao; Pan, Jeng-Shyang

    2013-01-01

    Kernel Learning Algorithms for Face Recognition covers the framework of kernel based face recognition. This book discusses the advanced kernel learning algorithms and its application on face recognition. This book also focuses on the theoretical deviation, the system framework and experiments involving kernel based face recognition. Included within are algorithms of kernel based face recognition, and also the feasibility of the kernel based face recognition method. This book provides researchers in pattern recognition and machine learning area with advanced face recognition methods and its new

  7. Crystal structure of tRNA m(1)A58 methyltransferase TrmI from Aquifex aeolicus in complex with S-adenosyl-L-methionine.

    Kuratani, Mitsuo; Yanagisawa, Tatsuo; Ishii, Ryohei; Matsuno, Michiyo; Si, Shu-Yi; Katsura, Kazushige; Ushikoshi-Nakayama, Ryoko; Shibata, Rie; Shirouzu, Mikako; Bessho, Yoshitaka; Yokoyama, Shigeyuki

    2014-09-01

    The N (1)-methyladenosine residue at position 58 of tRNA is found in the three domains of life, and contributes to the stability of the three-dimensional L-shaped tRNA structure. In thermophilic bacteria, this modification is important for thermal adaptation, and is catalyzed by the tRNA m(1)A58 methyltransferase TrmI, using S-adenosyl-L-methionine (AdoMet) as the methyl donor. We present the 2.2 Å crystal structure of TrmI from the extremely thermophilic bacterium Aquifex aeolicus, in complex with AdoMet. There are four molecules per asymmetric unit, and they form a tetramer. Based on a comparison of the AdoMet binding mode of A. aeolicus TrmI to those of the Thermus thermophilus and Pyrococcus abyssi TrmIs, we discuss their similarities and differences. Although the binding modes to the N6 amino group of the adenine moiety of AdoMet are similar, using the side chains of acidic residues as well as hydrogen bonds, the positions of the amino acid residues involved in binding are diverse among the TrmIs from A. aeolicus, T. thermophilus, and P. abyssi. PMID:24894648

  8. A model for mis-sense error in protein synthesis: mis-charged cognate tRNA versus mis-reading of codon

    Dutta, Annwesha

    2015-01-01

    The sequence of amino acid monomers in the primary structure of protein is decided by the corresponding sequence of codons (triplets of nucleic acid monomers) on the template messenger RNA (mRNA). The polymerization of a protein, by incorporation of the successive amino acid monomers, is carried out by a molecular machine called ribosome. Transfer RNA (tRNA) molecules, each species of which is "charged" with a specific amino acid, enters the ribosome and participates in the reading of the codon by the ribosome. Both mis-reading of mRNA codon and prior mis-charging of a tRNA can lead to "mis-sense" error, i.e,. erroneous substitution of a correct amino acid monomer by an incorrect one during the synthesis of a protein. We develop a theoretical model of protein synthesis that allows for both types of contributions to the "mis-sense" error. We report exact analytical formulae for several quantities that characterize the interplay of mis-charging of tRNA and mis-reading of mRNA. The average rate of elongation of ...

  9. Crystal structure of the two-subunit tRNA m1A58 methyltransferase TRM6-TRM61 from Saccharomyces cerevisiae

    Wang, Mingxing; Zhu, Yuwei; Wang, Chongyuan; Fan, Xiaojiao; Jiang, Xuguang; Ebrahimi, Mohammad; Qiao, Zhi; Niu, Liwen; Teng, Maikun; Li, Xu

    2016-01-01

    The N1 methylation of adenine at position 58 (m1A58) of tRNA is an important post-transcriptional modification, which is vital for maintaining the stability of the initiator methionine tRNAiMet. In eukaryotes, this modification is performed by the TRM6-TRM61 holoenzyme. To understand the molecular mechanism that underlies the cooperation of TRM6 and TRM61 in the methyl transfer reaction, we determined the crystal structure of TRM6-TRM61 holoenzyme from Saccharomyces cerevisiae in the presence and absence of its methyl donor S-Adenosyl-L-methionine (SAM). In the structures, two TRM6-TRM61 heterodimers assemble as a heterotetramer. Both TRM6 and TRM61 subunits comprise an N-terminal β-barrel domain linked to a C-terminal Rossmann-fold domain. TRM61 functions as the catalytic subunit, containing a methyl donor (SAM) binding pocket. TRM6 diverges from TRM61, lacking the conserved motifs used for binding SAM. However, TRM6 cooperates with TRM61 forming an L-shaped tRNA binding regions. Collectively, our results provide a structural basis for better understanding the m1A58 modification of tRNA occurred in Saccharomyces cerevisiae. PMID:27582183

  10. Real-Time Ensemble Based Face Recognition System for Humanoid Robots

    Samuel, Kadri

    2016-01-01

    Humanoid robots are being used in many industrial and domestic application in which human-robot interaction plays an important role. One of the important existing challenges is developing an accurate real-time face recognition system which is not required to be computationally expensive. In this research work a real-time face recognition system which requires low computational complexity is proposed. For this purpose, this thesis is investigating block processing of local binary patterns o...

  11. Comparison of fusion methods based on DST and DBN in human activity recognition

    2011-01-01

    Ambient assistive living environments require sophisticated information fusion and reasoning techniques to accurately identify activities of a person under care. In this paper, we explain, compare and discuss the application of two powerful fusion methods, namely dynamic Bayesian networks (DBN) and Dempster-Shafer theory (DST), for human activity recognition. Both methods are described, the implementation of activity recognition based on these methods is explained, and model acquisition and composition are ...

  12. The effects of presentation methods and semantic information on multi-ethnicity face recognition

    Kaarel Rundu; Kristjan Kask

    2012-01-01

    Studies have shown that own-race faces are more accurately recognised than other-race faces. The present study examined the effects of own- and other-race face recognition when different ethnicity targets are presented to the participants together. Also the effect of semantic information on the recognition of different race faces was examined. The participants (N = 234) were presented with photos of own-race and other-race faces. For some participants the faces were presented with stereotypic...

  13. Chaotic Neural Network for Biometric Pattern Recognition

    Kushan Ahmadian

    2012-01-01

    Full Text Available Biometric pattern recognition emerged as one of the predominant research directions in modern security systems. It plays a crucial role in authentication of both real-world and virtual reality entities to allow system to make an informed decision on granting access privileges or providing specialized services. The major issues tackled by the researchers are arising from the ever-growing demands on precision and performance of security systems and at the same time increasing complexity of data and/or behavioral patterns to be recognized. In this paper, we propose to deal with both issues by introducing the new approach to biometric pattern recognition, based on chaotic neural network (CNN. The proposed method allows learning the complex data patterns easily while concentrating on the most important for correct authentication features and employs a unique method to train different classifiers based on each feature set. The aggregation result depicts the final decision over the recognized identity. In order to train accurate set of classifiers, the subspace clustering method has been used to overcome the problem of high dimensionality of the feature space. The experimental results show the superior performance of the proposed method.

  14. Side-View Face Recognition

    Santemiz, Pinar; Spreeuwers, Luuk J.; Veldhuis, Raymond N. J.; Biggelaar, van den, M.

    2011-01-01

    As a widely used biometrics, face recognition has many advantages such as being non-intrusive, natural and passive. On the other hand, in real-life scenarios with uncontrolled environment, pose variation up to side-view positions makes face recognition a challenging work. In this paper we discuss the use of side-view face recognition in house safety applications. Our goal is to recognize people as they pass through doors in order to estimate their location in the house. In order to preserve p...

  15. Side-View Face Recognition

    Santemiz, Pinar; Spreeuwers, Luuk J.; Veldhuis, Raymond N. J.

    2010-01-01

    Side-view face recognition is a challenging problem with many applications. Especially in real-life scenarios where the environment is uncontrolled, coping with pose variations up to side-view positions is an important task for face recognition. In this paper we discuss the use of side view face recognition techniques to be used in house safety applications. Our aim is to recognize people as they pass through a door, and estimate their location in the house. Here, we compare available databas...

  16. Logo Recognition Theory and Practice

    Chen, Jingying

    2011-01-01

    Used by companies, organizations, and even individuals to promote recognition of their brand, logos can also act as a valuable means of identifying the source of a document. E-business applications can retrieve and catalog products according to their logos. Governmental agencies can easily inspect goods using smart mobile devices that use logo recognition techniques. However, because logos are two-dimensional shapes of varying complexity, the recognition process can be challenging. Although promising results have been found for clean logos, they have not been as robust for noisy logos. Logo Re

  17. Macromolecular recognition: Recognition of polymer side chains by cyclodextrin

    Hashidzume, Akihito; Harada, Akira

    2015-12-01

    The interaction of cyclodextrins (CD) with water soluble polymers possessing guest residues has been investigated as model systems in biological molecular recognition. The selectivity of interaction of CD with polymer-carrying guest residues is controlled by polymer chains, i.e., the steric effect of polymer main chain, the conformational effect of polymer main chain, and multi-site interaction. Macroscopic assemblies have been also realized based on molecular recognition using polyacrylamide-based gels possessing CD and guest residues.

  18. Multiscale Recognition Algorithm for Eye Ground Texture Based on Fusion Threshold Equalization

    Zhongsheng Qiu

    2014-09-01

    Full Text Available The eye ground texture is disturbed by non ideal imaging factor such as noise, it will affect the clinical diagnosis in practice, an improved multi scale retina eye ground texture recognition algorithm is proposed based on fusion area threshold. The nonlinear sampling multi-scale transform is used to analyze the geometric space coefficient of retinal vessels with multi direction and shift invariant features, the regional threshold filtering is integrated, it is used to suppress the effect of non-uniform blocks for texture recognition. The maximum likelihood local mean standard deviation analysis is used for texture parameters estimation and recognition. The noise reduced greatly, accurate identification of texture feature is obtained. Simulation results show that the algorithm can well characterize the retinal vascular texture, it has good performance in different texture feature recognition, the recognition accuracy is improved, and it has good robustness.

  19. A Principal Component Analysis Method for Recognition of Human Faces: Eigenfaces Approach

    Shemi P M

    2012-05-01

    Full Text Available Facial recognition is a biometric method of identifying a person based on a picture of their face. Facial recognition system is very much important for security, surveillance and in forensics. In this paper, a face recognition system based on eigenfaces approach of Principal Component Analysis (PCA is proposed. The eigenfaces approach based on PCA is a very accurate method of facial recognition problem as lot of features can be extracted and all of the data of the image is analyzed together without leaving any of the information. This approach is preferred in pattern recognition tasks due to its simplicity, speed and learning capability. The relevance of eigenfaces in transmission and reception of data in communication field is also experimentally analyzed.

  20. Post Stamp Perforation Recognition

    Koníček, Vladimír

    2008-01-01

    Rozpoznávání zoubkování poštovních známek je důležitým faktorem při posuzování pravosti poštovní známky. Typ a rozměr zoubkování mají výrazný vliv na cenu poštovní známky. Tato práce se zabývá navrhem detektoru zoubkování poštovních známek. Cílem práce je vytvořit aplikaci, která z fotografie určí zoubkování zobrazené poštovní známky. Aplikace pro práci s obrazy využívá knihovnu OpenCV. Post stamp perforation recognition is important factor in authentication of post stamps. Type and perfor...

  1. Structure–function relations in the NTPase domain of the antiviral tRNA ribotoxin Escherichia coli PrrC

    Breakage of tRNA by Escherichia coli anticodon nuclease PrrC (EcoPrrC) underlies a host antiviral response to phage T4 infection. Expression of EcoPrrC is cytocidal in yeast, signifying that PrrC ribotoxicity crosses phylogenetic domain boundaries. EcoPrrC consists of an N-terminal NTPase module that resembles ABC transporters and a C-terminal nuclease module that is sui generis. PrrC homologs are prevalent in many other bacteria. Here we report that Haemophilus influenzae PrrC is toxic in E. coli and yeast. To illuminate structure–activity relations, we conducted a new round of mutational analysis of EcoPrrC guided by primary structure conservation among toxic PrrC homologs. We indentify 17 candidate active site residues in the NTPase module that are essential for toxicity in yeast when EcoPrrC is expressed at high gene dosage. Their functions could be educed by integrating mutational data with the atomic structure of the transition-state complex of a homologous ABC protein.

  2. A Gateway platform for functional genomics in Haloferax volcanii: deletion of three tRNA modification genes

    Basma El Yacoubi

    2009-01-01

    Full Text Available In part due to the existence of simple methods for its cultivation and genetic manipulation, Haloferax volcanii is a major archaeal model organism. It is the only archaeon for which the whole set of post-transcriptionally modified tRNAs has been sequenced, allowing for an in silico prediction of all RNA modification genes present in the organism. One approach to check these predictions experimentally is via the construction of targeted gene deletion mutants. Toward this goal, an integrative “Gateway vector” that allows gene deletion in H. volcanii uracil auxotrophs was constructed. The vector was used to delete three predicted tRNA modification genes: HVO_2001 (encoding an archaeal transglycosyl tranferase or arcTGT, which is involved in archeosine biosynthesis; HVO_2348 (encoding a newly discovered GTP cyclohydrolase I, which catalyzes the first step common to archaeosine and folate biosynthesis; and HVO_2736 (encoding a member of the COG1444 family, which is involved in N4-acetylcytidine (ac4C formation. Preliminary phenotypic analysis of the deletion mutants was conducted, and confirmed all three predictions.

  3. Point mutation in mitochondrial tRNA gene is associated with polycystic ovary syndrome and insulin resistance.

    Ding, Yu; Zhuo, Guangchao; Zhang, Caijuan; Leng, Jianhang

    2016-04-01

    Polycystic ovarian syndrome (PCOS) is characterized by chronic anovulation, hyperandrogenism and polycystic ovaries. To date, the molecular mechanisms underlying PCOS have remained to be fully elucidated. As recent studies have revealed a positive association between mitochondrial dysfunction and PCOS, current investigations focus on mutations in the mitochondrial genome of patients with POCS. The present study reported a Chinese patient with PCOS. Sequence analysis of the mitochondrial genome showed the presence of homoplasmic ND5 T12338C and tRNASer (UCN) C7492T mutations as well as a set of polymorphisms belonging to the human mitochondrial haplogroup F2. The T12338C mutation is known to decrease the ND5 mRNA levels and to inhibit the processing of RNA precursors. The C7492T mutation, which occurred at the highly conserved nucleotide in the anticodon stem of the tRNASer (UCN) gene, is important for the tRNA steady‑state level as well as the aminoacylation ability. Therefore, the combination of the ND5 T12338C and tRNASer (UCN) C7492T mutations may lead to mitochondrial dysfunction, and is likely to be involved in the pathogenesis of PCOS. The present study provided novel insight into the molecular mechanisms of PCOS. PMID:26935780

  4. Evolutionary Limitation and Opportunities for Developing tRNA Synthetase Inhibitors with 5-Binding-Mode Classification

    Pengfei Fang

    2015-12-01

    Full Text Available Aminoacyl-tRNA synthetases (aaRSs are enzymes that catalyze the transfer of amino acids to their cognate tRNAs as building blocks for translation. Each of the aaRS families plays a pivotal role in protein biosynthesis and is indispensable for cell growth and survival. In addition, aaRSs in higher species have evolved important non-translational functions. These translational and non-translational functions of aaRS are attractive for developing antibacterial, antifungal, and antiparasitic agents and for treating other human diseases. The interplay between amino acids, tRNA, ATP, EF-Tu and non-canonical binding partners, had shaped each family with distinct pattern of key sites for regulation, with characters varying among species across the path of evolution. These sporadic variations in the aaRSs offer great opportunity to target these essential enzymes for therapy. Up to this day, growing numbers of aaRS inhibitors have been discovered and developed. Here, we summarize the latest developments and structural studies of aaRS inhibitors, and classify them with distinct binding modes into five categories.

  5. Structure-function relations in the NTPase domain of the antiviral tRNA ribotoxin Escherichia coli PrrC

    Meineke, Birthe; Shuman, Stewart, E-mail: s-shuman@ski.mskcc.org

    2012-06-05

    Breakage of tRNA by Escherichia coli anticodon nuclease PrrC (EcoPrrC) underlies a host antiviral response to phage T4 infection. Expression of EcoPrrC is cytocidal in yeast, signifying that PrrC ribotoxicity crosses phylogenetic domain boundaries. EcoPrrC consists of an N-terminal NTPase module that resembles ABC transporters and a C-terminal nuclease module that is sui generis. PrrC homologs are prevalent in many other bacteria. Here we report that Haemophilus influenzae PrrC is toxic in E. coli and yeast. To illuminate structure-activity relations, we conducted a new round of mutational analysis of EcoPrrC guided by primary structure conservation among toxic PrrC homologs. We indentify 17 candidate active site residues in the NTPase module that are essential for toxicity in yeast when EcoPrrC is expressed at high gene dosage. Their functions could be educed by integrating mutational data with the atomic structure of the transition-state complex of a homologous ABC protein.

  6. Cardiac abnormalities in diabetic patients with mutation in the mitochondrial tRNA Leu(UUR)Gene

    An A-to-G transition at position 3243 of the mitochondrial DNA is known to be a pathogenic factor for mitochondrial myopathy, encephalopathy, lactic acidosis and stroke-like episodes (MELAS), diabetes and cardiomyopathy. This mutation causes dysfunction of the central nervous system in MELAS. Because the heart, as well as the brain and nervous system, is highly dependent on the energy produced by mitochondrial oxidation, these tissues are more vulnerable to mitochondrial defects. Cardiac abnormalities were assessed in 10 diabetic patients associated with this mutation using echocardiography and 123I-metaiodobenzylguanidine (MIBG) scintigraphy, and compared with 19 diabetic patients without the mutation. Duration of diabetes, therapy, control of blood glucose and diabetic complications, such as diabetic retinopathy and nephropathy, were not different between the 2 groups. Diabetic patients with the mutation had a significantly thicker interventricular septum (16.8±3.7 vs 11.0±1.6 mm, p0.05). In conclusion, left ventricular hypertrophy with or without abnormal wall motion and severely reduced MIBG uptake may be characteristic in diabetic patients with a mutation in the mitochondrial tRNA Leu(UUR) gene. (author)

  7. Expression intensity, gender and facial emotion recognition: Women recognize only subtle facial emotions better than men.

    Hoffmann, Holger; Kessler, Henrik; Eppel, Tobias; Rukavina, Stefanie; Traue, Harald C

    2010-11-01

    Two experiments were conducted in order to investigate the effect of expression intensity on gender differences in the recognition of facial emotions. The first experiment compared recognition accuracy between female and male participants when emotional faces were shown with full-blown (100% emotional content) or subtle expressiveness (50%). In a second experiment more finely grained analyses were applied in order to measure recognition accuracy as a function of expression intensity (40%-100%). The results show that although women were more accurate than men in recognizing subtle facial displays of emotion, there was no difference between male and female participants when recognizing highly expressive stimuli. PMID:20728864

  8. Recognition of Facial Expressions using Local Binary Patterns of Important Facial Parts

    Ramchand Hablani

    2013-04-01

    Full Text Available Facial Expression Recognition is one of the exciting and challenging field; it has important applications in many areas such as data driven animation, human computer interaction and robotics. Extracting effective features from the human face is an important step for successful facial expression recognition. In this paper we have evaluated Local Binary Patterns of some important parts of human face, for person independent as well as person dependent facial expression recognition. Extensive experiments on JAFFE database are conducted. The experiment results show that person dependent method is highly accurate and outperform many existing methods.

  9. BRDF Slices: Accurate Adaptive Anisotropic Appearance Acquisition

    Filip, Jiří; Vávra, Radomír; Haindl, Michal; Žid, Pavel; Krupička, Mikuláš; Havran, V.

    New York: IEEE Computer Society Conference Publishing Services, 2013, s. 1468-1473. ISBN 978-0-7695-4990-3. ISSN 2160-7508. [Computer Vision and Pattern Recognition. Portland, OR (US), 23.06.2013-28.06.2013] R&D Projects: GA ČR GAP103/11/0335 Grant ostatní: EC FP7, European Reintegration Grant(BE) 239294 Institutional support: RVO:67985556 Keywords : BRDF slices * adaptive anisotropic material appearance * measurement device Subject RIV: BD - Theory of Information http://library.utia.cas.cz/separaty/2013/RO/filip-0393865.pdf

  10. Iris Recognition using Orthogonal Transforms

    M.Mani Roja

    2012-12-01

    Full Text Available Iris Recognition is a biometric recognition technique in which features of the iris are used to uniquely identify individuals. Iris recognition has over the years emerged as one of the most accuratebiometric techniques as opposed to other biometric techniques like face, signature and fingerprint. First, the iris image is pre processed using canny edge detector using a Gaussian filter. The iris edge and the pupil edge are extracted using image morphological operation, image opening. After normalization of red, green and blue components of the colour iris using Euclidean distance method, they are combined to form the localized colour iris. For feature vectors extraction, orthogonal transforms like discrete cosine transform, discrete sine transform and discrete Fourier transform have been considered. The proposed iris recognition system is very time efficient and it takes less than 1 second to grant authentication.

  11. Similarity measures for face recognition

    Vezzetti, Enrico

    2015-01-01

    Face recognition has several applications, including security, such as (authentication and identification of device users and criminal suspects), and in medicine (corrective surgery and diagnosis). Facial recognition programs rely on algorithms that can compare and compute the similarity between two sets of images. This eBook explains some of the similarity measures used in facial recognition systems in a single volume. Readers will learn about various measures including Minkowski distances, Mahalanobis distances, Hansdorff distances, cosine-based distances, among other methods. The book also summarizes errors that may occur in face recognition methods. Computer scientists "facing face" and looking to select and test different methods of computing similarities will benefit from this book. The book is also useful tool for students undertaking computer vision courses.

  12. Pattern recognition and string matching

    Cheng, Xiuzhen

    2002-01-01

    The research and development of pattern recognition have proven to be of importance in science, technology, and human activity. Many useful concepts and tools from different disciplines have been employed in pattern recognition. Among them is string matching, which receives much theoretical and practical attention. String matching is also an important topic in combinatorial optimization. This book is devoted to recent advances in pattern recognition and string matching. It consists of twenty eight chapters written by different authors, addressing a broad range of topics such as those from classifica­ tion, matching, mining, feature selection, and applications. Each chapter is self-contained, and presents either novel methodological approaches or applications of existing theories and techniques. The aim, intent, and motivation for publishing this book is to pro­ vide a reference tool for the increasing number of readers who depend upon pattern recognition or string matching in some way. This includes student...

  13. Moment Invariants for Object Recognition

    Flusser, Jan

    Boca Raton: Wiley&Sons, 2015. ISBN 9780471346081 Institutional support: RVO:67985556 Keywords : invariants * object recognition * moments Subject RIV: JC - Computer Hardware ; Software http://library.utia.cas.cz/separaty/2015/ZOI/flusser-0442976.pdf

  14. A Survey: Face Recognition Techniques

    Muhammad Sharif; Sajjad Mohsin; Muhammad Younas Javed

    2012-01-01

    In this study, the existing techniques of face recognition are to be encountered along with their pros and cons to conduct a brief survey. The most general methods include Eigenface (Eigenfeatures), Hidden Markov Model (HMM), geometric based and template matching approaches. This survey actually performs analysis on these approaches in order to constitute face representations which will be discussed as under. In the second phase of the survey, factors affecting the recognition rates and proce...

  15. A SURVEY ON FACE RECOGNITION

    R.VINODINI; DR.M.KARNAN

    2014-01-01

    Face recognition is one of the most emerging and popular biometric authentication of a person, it presents a challenging problem in the field of image analysis and computer vision. Though there are various biometric traits such as iris, fingerprint and palm print etc., we focused on face recognition as it is socially acceptable and reliable. Here user identity plays a very important role to uniquely verify or authenticate the individual person. Many techniques were implemented in face recogni...

  16. Theoretical Aspects of Molecular Recognition

    Harmat, Veronika; Náray-Szabó, Gábor

    2009-01-01

    Molecular recognition is a key process in non-covalent interactions, which determines, among others, host-guest complexation, drug action and protein-protein interaction. A simple and attractive formulation is the lock-and-key analogy defining the host as a lock accommodating the guest as a key. We stress three major aspects of molecular recognition, determining both complementarity between host and guest and similarity within a group of guest molecules. These aspects are: steric, i.e. maximi...

  17. Pattern Recognition Theory of Mind

    de Paiva, Gilberto

    2009-01-01

    I propose that pattern recognition, memorization and processing are key concepts that can be a principle set for the theoretical modeling of the mind function. Most of the questions about the mind functioning can be answered by a descriptive modeling and definitions from these principles. An understandable consciousness definition can be drawn based on the assumption that a pattern recognition system can recognize its own patterns of activity. The principles, descriptive modeling and definiti...

  18. Educational perspectives on recognition theory

    Hanhela, T. (Teemu)

    2014-01-01

    Abstract The starting point for the research is to examine the educational perspectives of Axel Honneth’s recognition theory to find useful contents for educational institutions. The method of the thesis is conceptual analysis which gets a dual role: chapters two and three of the treatise define and analyse Honneth’s concept of recognition and its historic-philosophical context and with help of critical analyses, the articles (I, II and III) and chapter four of the dissertation connects t...

  19. Object Recognition Using Spatiotemporal Signatures

    James V Stone

    1998-01-01

    The sequence of images generated by motion between observer and object specifies a spatiotemporal signature for that object. Evidence is presented that such spatiotemporal signatures are used in object recognition. Subjects learned novel, three-dimensional, rotating objects from image sequences in a continuous recognition task. During learning, the temporal order of images of a given object was constant. During testing, the order of images in each sequence was reversed, relative to its order ...

  20. Automatic Number Plate Recognition System

    Rajshree Dhruw; Dharmendra Roy

    2014-01-01

    Automatic Number Plate Recognition (ANPR) is a mass surveillance system that captures the image of vehicles and recognizes their license number. The objective is to design an efficient automatic authorized vehicle identification system by using the Indian vehicle number plate. In this paper we discus different methodology for number plate localization, character segmentation & recognition of the number plate. The system is mainly applicable for non standard Indian number plates by recognizing...

  1. Facial Expressions Recognition Using Eigenspaces

    Senthil Ragavan Valayapalayam Kittusamy; Venkatesh Chakrapani

    2012-01-01

    A challenging research topic is to make the Computer Systems to recognize facial expressions from the face image. A method of facial expression recognition, based on Eigenspaces is presented in this study. Here, the authors recognize the userâs facial expressions from the input images, using a method that was customized from eigenface recognition. Evaluation was done for this method in terms of identification correctness using two different Facial Expressions databases, Cohn-Kanade facial exp...

  2. Combinatorial approaches to gene recognition.

    Roytberg, M A; Astakhova, T V; Gelfand, M S

    1997-01-01

    Recognition of genes via exon assembly approaches leads naturally to the use of dynamic programming. We consider the general graph-theoretical formulation of the exon assembly problem and analyze in detail some specific variants: multicriterial optimization in the case of non-linear gene-scoring functions; context-dependent schemes for scoring exons and related procedures for exon filtering; and highly specific recognition of arbitrary gene segments, oligonucleotide probes and polymerase chain reaction (PCR) primers. PMID:9440930

  3. Speech Recognition Technology: Applications & Future

    Pankaj Pathak

    2010-01-01

    Voice or speech recognition is "the technology by which sounds, words or phrases spoken by humans are converted into electrical signals, and these signals are transformed into coding patterns to which meaning has been assigned", .It is the technology needs a combination of improved artificial intelligence technology and a more sophisticated speech-recognition engine . Initially a primitive device is developed which could recognize speech, by AT & T Bell Laboratories in the 1940s. According to...

  4. Recognition Memory in Psychotic Patients

    H. Ellis

    1992-01-01

    Full Text Available Preliminary data are reported from experiments in which Warrington's (1984 Recognition Memory Tests were given to patients with misidentification delusions including the Capgras type and to psychotic patients. The results showed a profound impairment on face recognition for most groups, especially those with the Capgras delusion. It was rare to find a patent whose score on the word test was anything but normal.

  5. Success with voice recognition.

    Sferrella, Sheila M

    2003-01-01

    You need a compelling reason to implement voice recognition technology. At my institution, the compelling reason was a turnaround time for Radiology results of more than two days. Only 41 percent of our reports were transcribed and signed within 24 hours. In November 1998, a team from Lehigh Valley Hospital went to RSNA and reviewed every voice system on the market. The evaluation was done with the radiologist workflow in mind, and we came back from the meeting with the vendor selection completed. The next steps included developing a business plan, approval of funds, reference calls to more than 15 sites and contract negotiation, all of which took about six months. The department of Radiology at Lehigh Valley Hospital and Health Network (LVHHN) is a multi-site center that performs over 360,000 procedures annually. The department handles all modalities of radiology: general diagnosis, neuroradiology, ultrasound, CT Scan, MRI, interventional radiology, arthography, myelography, bone densitometry, nuclear medicine, PET imaging, vascular lab and other advanced procedures. The department consists of 200 FTEs and a medical staff of more than 40 radiologists. The budget is in the $10.3 million range. There are three hospital sites and four outpatient imaging center sites where services are provided. At Lehigh Valley Hospital, radiologists are not dedicated to one subspecialty, so implementing a voice system by modality was not an option. Because transcription was so far behind, we needed to eliminate that part of the process. As a result, we decided to deploy the system all at once and with the radiologists as editors. The planning and testing phase took about four months, and the implementation took two weeks. We deployed over 40 workstations and trained close to 50 physicians. The radiologists brought in an extra radiologist from our group for the two weeks of training. That allowed us to train without taking a radiologist out of the department. We trained three to six

  6. Voice congruency facilitates word recognition.

    Sandra Campeanu

    Full Text Available Behavioral studies of spoken word memory have shown that context congruency facilitates both word and source recognition, though the level at which context exerts its influence remains equivocal. We measured event-related potentials (ERPs while participants performed both types of recognition task with words spoken in four voices. Two voice parameters (i.e., gender and accent varied between speakers, with the possibility that none, one or two of these parameters was congruent between study and test. Results indicated that reinstating the study voice at test facilitated both word and source recognition, compared to similar or no context congruency at test. Behavioral effects were paralleled by two ERP modulations. First, in the word recognition test, the left parietal old/new effect showed a positive deflection reflective of context congruency between study and test words. Namely, the same speaker condition provided the most positive deflection of all correctly identified old words. In the source recognition test, a right frontal positivity was found for the same speaker condition compared to the different speaker conditions, regardless of response success. Taken together, the results of this study suggest that the benefit of context congruency is reflected behaviorally and in ERP modulations traditionally associated with recognition memory.

  7. Accurate atomic data for industrial plasma applications

    Griesmann, U.; Bridges, J.M.; Roberts, J.R.; Wiese, W.L.; Fuhr, J.R. [National Inst. of Standards and Technology, Gaithersburg, MD (United States)

    1997-12-31

    Reliable branching fraction, transition probability and transition wavelength data for radiative dipole transitions of atoms and ions in plasma are important in many industrial applications. Optical plasma diagnostics and modeling of the radiation transport in electrical discharge plasmas (e.g. in electrical lighting) depend on accurate basic atomic data. NIST has an ongoing experimental research program to provide accurate atomic data for radiative transitions. The new NIST UV-vis-IR high resolution Fourier transform spectrometer has become an excellent tool for accurate and efficient measurements of numerous transition wavelengths and branching fractions in a wide wavelength range. Recently, the authors have also begun to employ photon counting techniques for very accurate measurements of branching fractions of weaker spectral lines with the intent to improve the overall accuracy for experimental branching fractions to better than 5%. They have now completed their studies of transition probabilities of Ne I and Ne II. The results agree well with recent calculations and for the first time provide reliable transition probabilities for many weak intercombination lines.

  8. More accurate picture of human body organs

    Computerized tomography and nucler magnetic resonance tomography (NMRT) are revolutionary contributions to radiodiagnosis because they allow to obtain a more accurate image of human body organs. The principles are described of both methods. Attention is mainly devoted to NMRT which has clinically only been used for three years. It does not burden the organism with ionizing radiation. (Ha)

  9. Micro-Recognition - Erving Goffman as Recognition Thinker

    Jacobsen, Michael Hviid; Kristiansen, Søren

    2009-01-01

      The purpose of this article is to present, develop and exemplify the argument that Erving Goffman can be regarded as an important yet somewhat overlooked contributor to recognition theory in contemporary sociology. Despite often being neglected in this respect, this article provides an interpre......  The purpose of this article is to present, develop and exemplify the argument that Erving Goffman can be regarded as an important yet somewhat overlooked contributor to recognition theory in contemporary sociology. Despite often being neglected in this respect, this article provides an...... interpretation of Goffman as a major recognition theorist on the micro-level of social analysis by way of his ritual metaphor. Erving Goffman's sociology is conventionally approached and appreciated primarily through his famous dramaturgical metaphor that describes and comprehends social life through the......-structural or macro-sociological recognition claims and all contain a certain political or moral edge - Goffman rather provides a much more descriptive and micro-sociological account of the workings and necessity of recognition. In his ritual metaphorical perspective, social interaction to a large extent...

  10. Oracle Complexity and Nontransitivity in Pattern Recognition

    Bulitko, Vadim

    2000-01-01

    Different mathematical models of recognition processes are known. In the present paper we consider a pattern recognition algorithm as an oracle computation on a Turing machine. Such point of view seems to be useful in pattern recognition as well as in recursion theory. Use of recursion theory in pattern recognition shows connection between a recognition algorithm comparison problem and complexity problems of oracle computation. That is because in many cases we can take into account only the n...

  11. Research on Three-dimensional Motion History Image Model and Extreme Learning Machine for Human Body Movement Trajectory Recognition

    Zheng Chang

    2015-01-01

    Full Text Available Based on the traditional machine vision recognition technology and traditional artificial neural networks about body movement trajectory, this paper finds out the shortcomings of the traditional recognition technology. By combining the invariant moments of the three-dimensional motion history image (computed as the eigenvector of body movements and the extreme learning machine (constructed as the classification artificial neural network of body movements, the paper applies the method to the machine vision of the body movement trajectory. In detail, the paper gives a detailed introduction about the algorithm and realization scheme of the body movement trajectory recognition based on the three-dimensional motion history image and the extreme learning machine. Finally, by comparing with the results of the recognition experiments, it attempts to verify that the method of body movement trajectory recognition technology based on the three-dimensional motion history image and extreme learning machine has a more accurate recognition rate and better robustness.

  12. Feedback about more accurate versus less accurate trials: differential effects on self-confidence and activation.

    Badami, Rokhsareh; VaezMousavi, Mohammad; Wulf, Gabriele; Namazizadeh, Mahdi

    2012-06-01

    One purpose of the present study was to examine whether self-confidence or anxiety would be differentially affected byfeedback from more accurate rather than less accurate trials. The second purpose was to determine whether arousal variations (activation) would predict performance. On day 1, participants performed a golf putting task under one of two conditions: one group received feedback on the most accurate trials, whereas another group received feedback on the least accurate trials. On day 2, participants completed an anxiety questionnaire and performed a retention test. Shin conductance level, as a measure of arousal, was determined. The results indicated that feedback about more accurate trials resulted in more effective learning as well as increased self-confidence. Also, activation was a predictor of performance. PMID:22808705

  13. Holistic face processing can inhibit recognition of forensic facial composites.

    McIntyre, Alex H; Hancock, Peter J B; Frowd, Charlie D; Langton, Stephen R H

    2016-04-01

    Facial composite systems help eyewitnesses to show the appearance of criminals. However, likenesses created by unfamiliar witnesses will not be completely accurate, and people familiar with the target can find them difficult to identify. Faces are processed holistically; we explore whether this impairs identification of inaccurate composite images and whether recognition can be improved. In Experiment 1 (n = 64) an imaging technique was used to make composites of celebrity faces more accurate and identification was contrasted with the original composite images. Corrected composites were better recognized, confirming that errors in production of the likenesses impair identification. The influence of holistic face processing was explored by misaligning the top and bottom parts of the composites (cf. Young, Hellawell, & Hay, 1987). Misalignment impaired recognition of corrected composites but identification of the original, inaccurate composites significantly improved. This effect was replicated with facial composites of noncelebrities in Experiment 2 (n = 57). We conclude that, like real faces, facial composites are processed holistically: recognition is impaired because unlike real faces, composites contain inaccuracies and holistic face processing makes it difficult to perceive identifiable features. This effect was consistent across composites of celebrities and composites of people who are personally familiar. Our findings suggest that identification of forensic facial composites can be enhanced by presenting composites in a misaligned format. PMID:26436334

  14. How Accurate is inv(A)*b?

    Druinsky, Alex

    2012-01-01

    Several widely-used textbooks lead the reader to believe that solving a linear system of equations Ax = b by multiplying the vector b by a computed inverse inv(A) is inaccurate. Virtually all other textbooks on numerical analysis and numerical linear algebra advise against using computed inverses without stating whether this is accurate or not. In fact, under reasonable assumptions on how the inverse is computed, x = inv(A)*b is as accurate as the solution computed by the best backward-stable solvers. This fact is not new, but obviously obscure. We review the literature on the accuracy of this computation and present a self-contained numerical analysis of it.

  15. Accurate guitar tuning by cochlear implant musicians.

    Thomas Lu

    Full Text Available Modern cochlear implant (CI users understand speech but find difficulty in music appreciation due to poor pitch perception. Still, some deaf musicians continue to perform with their CI. Here we show unexpected results that CI musicians can reliably tune a guitar by CI alone and, under controlled conditions, match simultaneously presented tones to <0.5 Hz. One subject had normal contralateral hearing and produced more accurate tuning with CI than his normal ear. To understand these counterintuitive findings, we presented tones sequentially and found that tuning error was larger at ∼ 30 Hz for both subjects. A third subject, a non-musician CI user with normal contralateral hearing, showed similar trends in performance between CI and normal hearing ears but with less precision. This difference, along with electric analysis, showed that accurate tuning was achieved by listening to beats rather than discriminating pitch, effectively turning a spectral task into a temporal discrimination task.

  16. Accurate guitar tuning by cochlear implant musicians.

    Lu, Thomas; Huang, Juan; Zeng, Fan-Gang

    2014-01-01

    Modern cochlear implant (CI) users understand speech but find difficulty in music appreciation due to poor pitch perception. Still, some deaf musicians continue to perform with their CI. Here we show unexpected results that CI musicians can reliably tune a guitar by CI alone and, under controlled conditions, match simultaneously presented tones to <0.5 Hz. One subject had normal contralateral hearing and produced more accurate tuning with CI than his normal ear. To understand these counterintuitive findings, we presented tones sequentially and found that tuning error was larger at ∼ 30 Hz for both subjects. A third subject, a non-musician CI user with normal contralateral hearing, showed similar trends in performance between CI and normal hearing ears but with less precision. This difference, along with electric analysis, showed that accurate tuning was achieved by listening to beats rather than discriminating pitch, effectively turning a spectral task into a temporal discrimination task. PMID:24651081

  17. Cardiac abnormalities in diabetic patients with mutation in the mitochondrial tRNA {sup Leu(UUR)}Gene

    Ueno, Hiroshi [Hyogo Medical Center for Adults, Akashi (Japan); Shiotani, Hideyuki

    1999-11-01

    An A-to-G transition at position 3243 of the mitochondrial DNA is known to be a pathogenic factor for mitochondrial myopathy, encephalopathy, lactic acidosis and stroke-like episodes (MELAS), diabetes and cardiomyopathy. This mutation causes dysfunction of the central nervous system in MELAS. Because the heart, as well as the brain and nervous system, is highly dependent on the energy produced by mitochondrial oxidation, these tissues are more vulnerable to mitochondrial defects. Cardiac abnormalities were assessed in 10 diabetic patients associated with this mutation using echocardiography and {sup 123}I-metaiodobenzylguanidine (MIBG) scintigraphy, and compared with 19 diabetic patients without the mutation. Duration of diabetes, therapy, control of blood glucose and diabetic complications, such as diabetic retinopathy and nephropathy, were not different between the 2 groups. Diabetic patients with the mutation had a significantly thicker interventricular septum (16.8{+-}3.7 vs 11.0{+-}1.6 mm, p<0.001) than those without the mutation. Fractional shortening was lower in diabetic patients with the mutation than those without it (30.7{+-}7.0 vs 42.5{+-}6.6, p<0.001). MIBG uptake on the delayed MIBG image was significantly lower in diabetic patients with the mutation than in those without the mutation (mean value of the heart to mediastinum ratio: 1.6{+-}0.2 vs 2.0{+-}0.4, p>0.05). In conclusion, left ventricular hypertrophy with or without abnormal wall motion and severely reduced MIBG uptake may be characteristic in diabetic patients with a mutation in the mitochondrial tRNA {sup Leu(UUR)} gene. (author)

  18. Post-transcriptional Boolean computation by combining aptazymes controlling mRNA translation initiation and tRNA activation.

    Klauser, Benedikt; Saragliadis, Athanasios; Ausländer, Simon; Wieland, Markus; Berthold, Michael R; Hartig, Jörg S

    2012-09-01

    In cellular systems environmental and metabolic signals are integrated for the conditional control of gene expression. On the other hand, artificial manipulation of gene expression is of high interest for metabolic and genetic engineering. Especially the reprogramming of gene expression patterns to orchestrate cellular responses in a predictable fashion is considered to be of great importance. Here we introduce a highly modular RNA-based system for performing Boolean logic computation at a post-transcriptional level in Escherichia coli. We have previously shown that artificial riboswitches can be constructed by utilizing ligand-dependent Hammerhead ribozymes (aptazymes). Employing RNA self-cleavage as the expression platform-mechanism of an artificial riboswitch has the advantage that it can be applied to control several classes of RNAs such as mRNAs, tRNAs, and rRNAs. Due to the highly modular and orthogonal nature of these switches it is possible to combine aptazyme regulation of activating a suppressor tRNA with the regulation of mRNA translation initiation. The different RNA classes can be controlled individually by using distinct aptamers for individual RNA switches. Boolean logic devices are assembled by combining such switches in order to act on the expression of a single mRNA. In order to demonstrate the high modularity, a series of two-input Boolean logic operators were constructed. For this purpose, we expanded our aptazyme toolbox with switches comprising novel behaviours with respect to the small molecule triggers thiamine pyrophosphate (TPP) and theophylline. Then, individual switches were combined to yield AND, NOR, and ANDNOT gates. This study demonstrates that post-transcriptional aptazyme-based switches represent versatile tools for engineering advanced genetic devices and circuits without the need for regulatory protein cofactors. PMID:22777205

  19. The Pai-associated leuX specific tRNA5(Leu) affects type 1fimbriation in pathogenic Escherichia coli by control of FimB recombinase expression

    Ritter, A.; Gally, D.; Olsen, Peter Bjarke; Friedrich, A.; Dobrindt, U; Klemm, Per; Hacker, J.

    1997-01-01

    The uropathogenic Escherichia coli strain 536 (06:K15:H31) carries two large chromosomalpathogenicity islands (Pais). Both Pais are flanked by tRNA genes. Spontaneous deletion of Pai IIresults in truncation of the leuX tRNA5Leu gene. This tRNA is required for the expression of type 1fimbriae (Fim...... recognized by tRNA5Leu, fimE contains only two. It was proposed thatturning on the fim switch requires efficient translation of FimB, in turn requiring tRNA5Leu. Strainsin which the TTG codons in fimB were replaced with CTG codons at the wild-type locus were ableto produce type 1 fimbriae in the absence of...... to be switched off inleuX-derivatives of E. coli 536, but could be found in the on position when the codon-altered fimBgene was exchanged into the chromosome of these strains. From these data, it is apparent thattRNA5Leu is required for efficient translation of FimB, in turn, leading to type 1...

  20. Kazakh Traditional Dance Gesture Recognition

    Nussipbekov, A. K.; Amirgaliyev, E. N.; Hahn, Minsoo

    2014-04-01

    Full body gesture recognition is an important and interdisciplinary research field which is widely used in many application spheres including dance gesture recognition. The rapid growth of technology in recent years brought a lot of contribution in this domain. However it is still challenging task. In this paper we implement Kazakh traditional dance gesture recognition. We use Microsoft Kinect camera to obtain human skeleton and depth information. Then we apply tree-structured Bayesian network and Expectation Maximization algorithm with K-means clustering to calculate conditional linear Gaussians for classifying poses. And finally we use Hidden Markov Model to detect dance gestures. Our main contribution is that we extend Kinect skeleton by adding headwear as a new skeleton joint which is calculated from depth image. This novelty allows us to significantly improve the accuracy of head gesture recognition of a dancer which in turn plays considerable role in whole body gesture recognition. Experimental results show the efficiency of the proposed method and that its performance is comparable to the state-of-the-art system performances.

  1. Accurate Finite Difference Methods for Option Pricing

    Persson, Jonas

    2006-01-01

    Stock options are priced numerically using space- and time-adaptive finite difference methods. European options on one and several underlying assets are considered. These are priced with adaptive numerical algorithms including a second order method and a more accurate method. For American options we use the adaptive technique to price options on one stock with and without stochastic volatility. In all these methods emphasis is put on the control of errors to fulfill predefined tolerance level...

  2. Accurate, reproducible measurement of blood pressure.

    Campbell, N. R.; Chockalingam, A; Fodor, J. G.; McKay, D. W.

    1990-01-01

    The diagnosis of mild hypertension and the treatment of hypertension require accurate measurement of blood pressure. Blood pressure readings are altered by various factors that influence the patient, the techniques used and the accuracy of the sphygmomanometer. The variability of readings can be reduced if informed patients prepare in advance by emptying their bladder and bowel, by avoiding over-the-counter vasoactive drugs the day of measurement and by avoiding exposure to cold, caffeine con...

  3. Accurate variational forms for multiskyrmion configurations

    Jackson, A.D.; Weiss, C.; Wirzba, A.; Lande, A.

    1989-04-17

    Simple variational forms are suggested for the fields of a single skyrmion on a hypersphere, S/sub 3/(L), and of a face-centered cubic array of skyrmions in flat space, R/sub 3/. The resulting energies are accurate at the level of 0.2%. These approximate field configurations provide a useful alternative to brute-force solutions of the corresponding Euler equations.

  4. Efficient Accurate Context-Sensitive Anomaly Detection

    2007-01-01

    For program behavior-based anomaly detection, the only way to ensure accurate monitoring is to construct an efficient and precise program behavior model. A new program behavior-based anomaly detection model,called combined pushdown automaton (CPDA) model was proposed, which is based on static binary executable analysis. The CPDA model incorporates the optimized call stack walk and code instrumentation technique to gain complete context information. Thereby the proposed method can detect more attacks, while retaining good performance.

  5. Towards accurate modeling of moving contact lines

    Holmgren, Hanna

    2015-01-01

    The present thesis treats the numerical simulation of immiscible incompressible two-phase flows with moving contact lines. The conventional Navier–Stokes equations combined with a no-slip boundary condition leads to a non-integrable stress singularity at the contact line. The singularity in the model can be avoided by allowing the contact line to slip. Implementing slip conditions in an accurate way is not straight-forward and different regularization techniques exist where ad-hoc procedures ...

  6. An Efficiency Analysis of Augmented Reality Marker Recognition Algorithm

    Kurpytė Dovilė

    2014-05-01

    Full Text Available The article reports on the investigation of augmented reality system which is designed for identification and augmentation of 100 different square markers. Marker recognition efficiency was investigated by rotating markers along x and y axis directions in range from −90° to 90°. Virtual simulations of four environments were developed: a an intense source of light, b an intense source of light falling from the left side, c the non-intensive light source falling from the left side, d equally falling shadows. The graphics were created using the OpenGL graphics computer hardware interface; image processing was programmed in C++ language using OpenCV, while augmented reality was developed in Java programming language using NyARToolKit. The obtained results demonstrate that augmented reality marker recognition algorithm is accurate and reliable in the case of changing lighting conditions and rotational angles - only 4 % markers were unidentified. Assessment of marker recognition efficiency let to propose marker classification strategy in order to use it for grouping various markers into distinct markers’ groups possessing similar recognition properties.

  7. A unified framework for gesture recognition and spatiotemporal gesture segmentation.

    Alon, Jonathan; Athitsos, Vassilis; Yuan, Quan; Sclaroff, Stan

    2009-09-01

    Within the context of hand gesture recognition, spatiotemporal gesture segmentation is the task of determining, in a video sequence, where the gesturing hand is located and when the gesture starts and ends. Existing gesture recognition methods typically assume either known spatial segmentation or known temporal segmentation, or both. This paper introduces a unified framework for simultaneously performing spatial segmentation, temporal segmentation, and recognition. In the proposed framework, information flows both bottom-up and top-down. A gesture can be recognized even when the hand location is highly ambiguous and when information about when the gesture begins and ends is unavailable. Thus, the method can be applied to continuous image streams where gestures are performed in front of moving, cluttered backgrounds. The proposed method consists of three novel contributions: a spatiotemporal matching algorithm that can accommodate multiple candidate hand detections in every frame, a classifier-based pruning framework that enables accurate and early rejection of poor matches to gesture models, and a subgesture reasoning algorithm that learns which gesture models can falsely match parts of other longer gestures. The performance of the approach is evaluated on two challenging applications: recognition of hand-signed digits gestured by users wearing short-sleeved shirts, in front of a cluttered background, and retrieval of occurrences of signs of interest in a video database containing continuous, unsegmented signing in American Sign Language (ASL). PMID:19574627

  8. A Novel Feature Extraction Technique for Facial Expression Recognition

    Mohammad Shahidul Islam

    2013-01-01

    Full Text Available This paper presents a new technique to extract the light invariant local feature for facial expression recognition. It is not only robust to monotonic gray-scale changes caused by light variations but also very simple to perform which makes it possible for analyzing images in challenging real-time settings. The local feature for a pixel is computed by finding the direction of the neighboring of the pixel with the particular rank in term of its gray scale value among all the neighboring pixels. When eight neighboring pixels are considered, the direction of the neighboring pixel with the second minima of the gray scale intensity can yield the best performance for the facial expression recognition in our experiment. The facial expression classification in the experiment was performed using a support vector machine on CK+ dataset The average recognition rate achieved is 90.1 3.8%, which is better than other previous local feature based methods for facial expression analysis. The experimental results do show that the proposed feature extraction technique is fast, accurate and efficient for facial expression recognition.

  9. Iris Recognition for Partially Occluded Images: Methodology and Sensitivity Analysis

    A. Poursaberi

    2007-01-01

    Full Text Available Accurate iris detection is a crucial part of an iris recognition system. One of the main issues in iris segmentation is coping with occlusion that happens due to eyelids and eyelashes. In the literature, some various methods have been suggested to solve the occlusion problem. In this paper, two different segmentations of iris are presented. In the first algorithm, a circle is located around the pupil with an appropriate diameter. The iris area encircled by the circular boundary is used for recognition purposes then. In the second method, again a circle is located around the pupil with a larger diameter. This time, however, only the lower part of the encircled iris area is utilized for individual recognition. Wavelet-based texture features are used in the process. Hamming and harmonic mean distance classifiers are exploited as a mixed classifier in suggested algorithm. It is observed that relying on a smaller but more reliable part of the iris, though reducing the net amount of information, improves the overall performance. Experimental results on CASIA database show that our method has a promising performance with an accuracy of 99.31%. The sensitivity of the proposed method is analyzed versus contrast, illumination, and noise as well, where lower sensitivity to all factors is observed when the lower half of the iris is used for recognition.

  10. Improving Protein Fold Recognition by Deep Learning Networks

    Jo, Taeho; Hou, Jie; Eickholt, Jesse; Cheng, Jianlin

    2015-12-01

    For accurate recognition of protein folds, a deep learning network method (DN-Fold) was developed to predict if a given query-template protein pair belongs to the same structural fold. The input used stemmed from the protein sequence and structural features extracted from the protein pair. We evaluated the performance of DN-Fold along with 18 different methods on Lindahl’s benchmark dataset and on a large benchmark set extracted from SCOP 1.75 consisting of about one million protein pairs, at three different levels of fold recognition (i.e., protein family, superfamily, and fold) depending on the evolutionary distance between protein sequences. The correct recognition rate of ensembled DN-Fold for Top 1 predictions is 84.5%, 61.5%, and 33.6% and for Top 5 is 91.2%, 76.5%, and 60.7% at family, superfamily, and fold levels, respectively. We also evaluated the performance of single DN-Fold (DN-FoldS), which showed the comparable results at the level of family and superfamily, compared to ensemble DN-Fold. Finally, we extended the binary classification problem of fold recognition to real-value regression task, which also show a promising performance. DN-Fold is freely available through a web server at http://iris.rnet.missouri.edu/dnfold.

  11. Accurate phase-shift velocimetry in rock

    Shukla, Matsyendra Nath; Vallatos, Antoine; Phoenix, Vernon R.; Holmes, William M.

    2016-06-01

    Spatially resolved Pulsed Field Gradient (PFG) velocimetry techniques can provide precious information concerning flow through opaque systems, including rocks. This velocimetry data is used to enhance flow models in a wide range of systems, from oil behaviour in reservoir rocks to contaminant transport in aquifers. Phase-shift velocimetry is the fastest way to produce velocity maps but critical issues have been reported when studying flow through rocks and porous media, leading to inaccurate results. Combining PFG measurements for flow through Bentheimer sandstone with simulations, we demonstrate that asymmetries in the molecular displacement distributions within each voxel are the main source of phase-shift velocimetry errors. We show that when flow-related average molecular displacements are negligible compared to self-diffusion ones, symmetric displacement distributions can be obtained while phase measurement noise is minimised. We elaborate a complete method for the production of accurate phase-shift velocimetry maps in rocks and low porosity media and demonstrate its validity for a range of flow rates. This development of accurate phase-shift velocimetry now enables more rapid and accurate velocity analysis, potentially helping to inform both industrial applications and theoretical models.

  12. High Frequency QRS ECG Accurately Detects Cardiomyopathy

    Schlegel, Todd T.; Arenare, Brian; Poulin, Gregory; Moser, Daniel R.; Delgado, Reynolds

    2005-01-01

    High frequency (HF, 150-250 Hz) analysis over the entire QRS interval of the ECG is more sensitive than conventional ECG for detecting myocardial ischemia. However, the accuracy of HF QRS ECG for detecting cardiomyopathy is unknown. We obtained simultaneous resting conventional and HF QRS 12-lead ECGs in 66 patients with cardiomyopathy (EF = 23.2 plus or minus 6.l%, mean plus or minus SD) and in 66 age- and gender-matched healthy controls using PC-based ECG software recently developed at NASA. The single most accurate ECG parameter for detecting cardiomyopathy was an HF QRS morphological score that takes into consideration the total number and severity of reduced amplitude zones (RAZs) present plus the clustering of RAZs together in contiguous leads. This RAZ score had an area under the receiver operator curve (ROC) of 0.91, and was 88% sensitive, 82% specific and 85% accurate for identifying cardiomyopathy at optimum score cut-off of 140 points. Although conventional ECG parameters such as the QRS and QTc intervals were also significantly longer in patients than controls (P less than 0.001, BBBs excluded), these conventional parameters were less accurate (area under the ROC = 0.77 and 0.77, respectively) than HF QRS morphological parameters for identifying underlying cardiomyopathy. The total amplitude of the HF QRS complexes, as measured by summed root mean square voltages (RMSVs), also differed between patients and controls (33.8 plus or minus 11.5 vs. 41.5 plus or minus 13.6 mV, respectively, P less than 0.003), but this parameter was even less accurate in distinguishing the two groups (area under ROC = 0.67) than the HF QRS morphologic and conventional ECG parameters. Diagnostic accuracy was optimal (86%) when the RAZ score from the HF QRS ECG and the QTc interval from the conventional ECG were used simultaneously with cut-offs of greater than or equal to 40 points and greater than or equal to 445 ms, respectively. In conclusion 12-lead HF QRS ECG employing

  13. Recognition of anxiety disorders by family physicians after rigorous medical record case extraction: results of the Netherlands Study of Depression and Anxiety.

    Janssen, E.H.C.; Ven, P.M. van de; Terluin, B.; Verhaak, P.F.M.; van Marwijk, H.W.J.; Smolders, M.; Meer, K. van der; Penninx, B.W.J.H.; Hout, H.P.J. van

    2012-01-01

    Objective: Previous studies reported low and inconsistent rates of recognition of anxiety disorders by family physicians (FPs). Our objectives were to examine (a) which combination of indications within medical records most accurately reflects recognition of anxiety disorders and (b) whether patient and FP characteristics were related to recognition. Method: A cross-sectional comparison was made between FPs' registration and a structured diagnostic interview, the Composite International Diagn...

  14. Embedded Systems for Iris Recognition

    Anushree S. Patil

    2015-09-01

    Full Text Available Iris Recognition increasingly used method of biometric authentication that involves pattern-recognition techniques of images of irides to uniquely identify a person. In this paper, IRIS biometrics has been chosen for implementation due to the reduced error rates and the robustness their algorithms provide. The goal of this paper is to design a detached system, to implement a working prototype of the techniques and methods used for iris recognition. A powerful ARM7TDMI-S core based micro controller LPC2148 is used to demonstrate the algorithms required for generating biometric templates from IRIS database for matching. The results from this device is compared to Matlab run PC which will give the insight required to compare the performance analysis of the algorithms in use proceedings.

  15. Mandarin recognition over the telephone

    Kao, Yuhung

    1996-06-01

    Mandarin Chinese is the official language in China and Taiwan, it is the native language of a quarter of the world population. As the services enabled by speech recognition technology (e.g. telephone voice dialing, information query) become more popular in English, we would like to extend this capability to other languages. Mandarin is one of the major languages under research in our laboratory. This paper describes how we extend our work in English speech recognition into Mandarin. We will described the corpus: Voice Across Taiwan, the training of a complete set of Mandarin syllable models, preliminary performance results and error analysis. A fast prototyping system was built, where a user can write any context free grammar with no restriction of vocabulary, then the grammar can be compiled into recognition models. It enables user to quickly test the performance of a new vocabulary.

  16. Sparse representation for vehicle recognition

    Monnig, Nathan D.; Sakla, Wesam

    2014-06-01

    The Sparse Representation for Classification (SRC) algorithm has been demonstrated to be a state-of-the-art algorithm for facial recognition applications. Wright et al. demonstrate that under certain conditions, the SRC algorithm classification performance is agnostic to choice of linear feature space and highly resilient to image corruption. In this work, we examined the SRC algorithm performance on the vehicle recognition application, using images from the semi-synthetic vehicle database generated by the Air Force Research Laboratory. To represent modern operating conditions, vehicle images were corrupted with noise, blurring, and occlusion, with representation of varying pose and lighting conditions. Experiments suggest that linear feature space selection is important, particularly in the cases involving corrupted images. Overall, the SRC algorithm consistently outperforms a standard k nearest neighbor classifier on the vehicle recognition task.

  17. Mobile-Customer Identity Recognition

    LI Zhan; XU Ji-sheng; XU Min; SUN Hong

    2005-01-01

    By utilizing artificial intelligence and pattern recognition techniques, we propose an integrated mobile-customer identity recognition approach in this paper, based on customer's behavior characteristics extracted from the customer information database. To verify the effectiveness of this approach, a test has been run on the dataset consisting of 1 000 customers in 3 consecutive months. The result is compared with the real dataset in the fourth month consisting of 162 customers, which has been set as the customers for recognition. The high correct rate of the test (96.30%), together with 1.87% of the judge-by-mistake rate and 7.82% of the leaving-out rate, demonstrates the effectiveness of this approach.

  18. Text Recognition from an Image

    Shrinath Janvalkar

    2014-04-01

    Full Text Available To achieve high speed in data processing it is necessary to convert the analog data into digital data. Storage of hard copy of any document occupies large space and retrieving of information from that document is time consuming. Optical character recognition system is an effective way in recognition of printed character. It provides an easy way to recognize and convert the printed text on image into the editable text. It also increases the speed of data retrieval from the image. The image which contains characters can be scanned through scanner and then recognition engine of the OCR system interpret the images and convert images of printed characters into machine-readable characters [8].It improving the interface between man and machine in many applications

  19. The mitochondrial genome of the stingless bee Melipona bicolor (Hymenoptera, Apidae, Meliponini: sequence, gene organization and a unique tRNA translocation event conserved across the tribe Meliponini

    Daniela Silvestre

    2008-01-01

    Full Text Available At present a complete mtDNA sequence has been reported for only two hymenopterans, the Old World honey bee, Apis mellifera and the sawfly Perga condei. Among the bee group, the tribe Meliponini (stingless bees has some distinction due to its Pantropical distribution, great number of species and large importance as main pollinators in several ecosystems, including the Brazilian rain forest. However few molecular studies have been conducted on this group of bees and few sequence data from mitochondrial genomes have been described. In this project, we PCR amplified and sequenced 78% of the mitochondrial genome of the stingless bee Melipona bicolor (Apidae, Meliponini. The sequenced region contains all of the 13 mitochondrial protein-coding genes, 18 of 22 tRNA genes, and both rRNA genes (one of them was partially sequenced. We also report the genome organization (gene content and order, gene translation, genetic code, and other molecular features, such as base frequencies, codon usage, gene initiation and termination. We compare these characteristics of M. bicolor to those of the mitochondrial genome of A. mellifera and other insects. A highly biased A+T content is a typical characteristic of the A. mellifera mitochondrial genome and it was even more extreme in that of M. bicolor. Length and compositional differences between M. bicolor and A. mellifera genes were detected and the gene order was compared. Eleven tRNA gene translocations were observed between these two species. This latter finding was surprising, considering the taxonomic proximity of these two bee tribes. The tRNA Lys gene translocation was investigated within Meliponini and showed high conservation across the Pantropical range of the tribe.

  20. MD simulation studies to investigate iso-energetic conformational behaviour of modified nucleosides m2G and m22G present in tRNA

    Rohit S Bavi

    2013-02-01

    Full Text Available Modified nucleic acid bases are most commonly found in tRNA. These may contain modifications from simple methylation to addition of bulky groups. Methylation of the four canonical nucleotide bases at a wide variety of positions is particularly prominent among the known modification. Methylation of N2 group of guanine is a relatively common modification in tRNA and rRNA. N2-methylguanosine (m2G is the second most often encountered nucleoside in E. coli tRNAs. N2, N2-dimethylguanosine (m22G is found in the majority of eukaryotic tRNAs and involved in forming base pair interactions with adjacent bases. Hence, in order to understand the structural significance of these methylated nucleic acid bases we have carried out molecular dynamics simulation to see the salvation effect. The results obtained shows iso-energetic conformational behaviors for m2G and m22G. The simulation trajectory of m2G shows regular periodical fluctuations suggesting that m2G is equally stable as either s-cis or s-trans rotamers. The two rotamers of m2G may interact canonically or non-canonically with opposite base as s-trans m2G26:C/A/U44 and s-cis m2G26:A/U44. The free rotations around the C-N bond could be the possible reason for these iso-energetic conformations. Dimethylation of G has almost no influence on base pairing with either A or U. Thus, these results reveal that modified nucleosides m2G and m22G may play an important role to prevent tRNA from adopting the unusual mitochondrial like conformation.

  1. Covalent coupling of 4-thiouridine in the initiator methionine tRNA to specific lysine residues in Escherichia coli methionyl-tRNA synthetase

    A new method has been developed to couple a lysine-reactive cross-linker to the 4-thiouridine residue at position 8 in the primary structure of the Escherichia coli initiator methionine tRNA (tRNA/sup fMet/). Incubation of the affinity-labeling tRNA/sup fMet/ derivative with E. coli methionyl-tRNA synthetase (MetRS) yielded a covalent complex of the protein and nucleic acid and resulted in loss of amino acid acceptor activity of the enzyme. A stoichiometric relationship (1:1) was observed between the amount of cross-linked tRNA and the amount of enzyme inactivated. Cross-linking was effectively inhibited by unmodified tRNA/sup fMet/, but not by noncognate tRNA/sup Phe/. The covalent complex was digested with trypsin, and the resulting tRNA-bound peptides were purified from excess free peptides by anion-exchange chromatography. The tRNA was then degraded with T1 ribonuclease, and the peptides bound to the 4-thiouridine-containing dinucleotide were purified by high-pressure liquid chromatography. Two major peptide products were isolated plus several minor peptides. N-Terminal sequencing of the peptides obtained in highest yield revealed that the 4-thiouridine was cross-linked to lysine residues 402 and 439 in the primary sequence of MetRS. Since many prokaryotic tRNAs contain 4-thiouridine, the procedures described here should prove useful for identification of peptide sequences near this modified base when a variety of tRNAs are bound to specific proteins

  2. Prevalence of the A1555G (12S rRNA and tRNA Ser(UCN mitochondrial mutations in hearing-impaired Brazilian patients

    Abreu-Silva R.S.

    2006-01-01

    Full Text Available Mitochondrial mutations are responsible for at least 1% of the cases of hereditary deafness, but the contribution of each mutation has not yet been defined in African-derived or native American genetic backgrounds. A total of 203 unselected hearing-impaired patients were screened for the presence of the mitochondrial mutation A1555G in the 12S rRNA gene and mutations in the tRNA Ser(UCN gene in order to assess their frequency in the ethnically admixed Brazilian population. We found four individuals with A1555G mutation (2%, which is a frequency similar to those reported for European-derived populations in unselected samples. On the other hand, complete sequencing of the tRNA Ser(UCN did not reveal reported pathogenic substitutions, namely A7445G, 7472insC, T7510C, or T7511C. Instead, other rare substitutions were found such as T1291C, A7569G, and G7444A. To evaluate the significance of these findings, 110 "European-Brazilians" and 190 "African-Brazilians" unrelated hearing controls were screened. The T1291C, A7569G and G7444A substitutions were each found in about 1% (2/190 of individuals of African ancestry, suggesting that they are probably polymorphic. Our results indicate that screening for the A1555G mutation is recommended among all Brazilian deaf patients, while testing for mutations in the tRNA Ser(UCN gene should be considered only when other frequent deafness-causing mutations have been excluded or in the presence of a maternal transmission pattern.

  3. An articulatorily constrained, maximum entropy approach to speech recognition and speech coding

    Hogden, J.

    1996-12-31

    Hidden Markov models (HMM`s) are among the most popular tools for performing computer speech recognition. One of the primary reasons that HMM`s typically outperform other speech recognition techniques is that the parameters used for recognition are determined by the data, not by preconceived notions of what the parameters should be. This makes HMM`s better able to deal with intra- and inter-speaker variability despite the limited knowledge of how speech signals vary and despite the often limited ability to correctly formulate rules describing variability and invariance in speech. In fact, it is often the case that when HMM parameter values are constrained using the limited knowledge of speech, recognition performance decreases. However, the structure of an HMM has little in common with the mechanisms underlying speech production. Here, the author argues that by using probabilistic models that more accurately embody the process of speech production, he can create models that have all the advantages of HMM`s, but that should more accurately capture the statistical properties of real speech samples--presumably leading to more accurate speech recognition. The model he will discuss uses the fact that speech articulators move smoothly and continuously. Before discussing how to use articulatory constraints, he will give a brief description of HMM`s. This will allow him to highlight the similarities and differences between HMM`s and the proposed technique.

  4. Acoustic modeling for emotion recognition

    Anne, Koteswara Rao; Vankayalapati, Hima Deepthi

    2015-01-01

     This book presents state of art research in speech emotion recognition. Readers are first presented with basic research and applications – gradually more advance information is provided, giving readers comprehensive guidance for classify emotions through speech. Simulated databases are used and results extensively compared, with the features and the algorithms implemented using MATLAB. Various emotion recognition models like Linear Discriminant Analysis (LDA), Regularized Discriminant Analysis (RDA), Support Vector Machines (SVM) and K-Nearest neighbor (KNN) and are explored in detail using prosody and spectral features, and feature fusion techniques.

  5. Discriminative learning for speech recognition

    He, Xiadong

    2008-01-01

    In this book, we introduce the background and mainstream methods of probabilistic modeling and discriminative parameter optimization for speech recognition. The specific models treated in depth include the widely used exponential-family distributions and the hidden Markov model. A detailed study is presented on unifying the common objective functions for discriminative learning in speech recognition, namely maximum mutual information (MMI), minimum classification error, and minimum phone/word error. The unification is presented, with rigorous mathematical analysis, in a common rational-functio

  6. Does aging impair first impression accuracy? Differentiating emotion recognition from complex social inferences.

    Krendl, Anne C; Rule, Nicholas O; Ambady, Nalini

    2014-09-01

    Young adults can be surprisingly accurate at making inferences about people from their faces. Although these first impressions have important consequences for both the perceiver and the target, it remains an open question whether first impression accuracy is preserved with age. Specifically, could age differences in impressions toward others stem from age-related deficits in accurately detecting complex social cues? Research on aging and impression formation suggests that young and older adults show relative consensus in their first impressions, but it is unknown whether they differ in accuracy. It has been widely shown that aging disrupts emotion recognition accuracy, and that these impairments may predict deficits in other social judgments, such as detecting deceit. However, it is unclear whether general impression formation accuracy (e.g., emotion recognition accuracy, detecting complex social cues) relies on similar or distinct mechanisms. It is important to examine this question to evaluate how, if at all, aging might affect overall accuracy. Here, we examined whether aging impaired first impression accuracy in predicting real-world outcomes and categorizing social group membership. Specifically, we studied whether emotion recognition accuracy and age-related cognitive decline (which has been implicated in exacerbating deficits in emotion recognition) predict first impression accuracy. Our results revealed that emotion recognition accuracy did not predict first impression accuracy, nor did age-related cognitive decline impair it. These findings suggest that domains of social perception outside of emotion recognition may rely on mechanisms that are relatively unimpaired by aging. PMID:25244469

  7. Gene conversion as a mechanism for divergence of a chloroplast tRNA gene inserted in the mitochondrial genome of Brassica oleracea.

    Dron, M; Hartmann, C; Rode, A.; Sevignac, M

    1985-01-01

    We have characterized a 1.7 kb sequence, containing a tRNA Leu2 gene shared by the ct and mt genomes of Brassica oleracea. The two sequences are completely homologous except in two short regions where two distinct gene conversion events have occurred between two sets of direct repeats leading to the insertion of 5 bp in the T loop of the mt copy of the ct gene. This is the first evidence that gene conversion represents the initial evolutionary step in inactivation of transferred ct genes in t...

  8. Elongation in translation as a dynamic interaction among the ribosome, tRNA, and elongation factors EF-G and EF-Tu

    Agirrezabala, Xabier; Frank, Joachim

    2009-01-01

    The ribosome is a complex macromolecular machine that translates the message encoded in the messenger RNA and synthesizes polypeptides by linking the individual amino acids carried by the cognate transfer RNAs (tRNAs). The protein elongation cycle, during which the tRNAs traverse the ribosome in a coordinated manner along a path of more than 100 Å, is facilitated by large-scale rearrangements of the ribosome. These rearrangements go hand in hand with conformational changes of tRNA as well as ...

  9. Impact of P-Site tRNA and antibiotics on ribosome mediated protein folding: studies using the Escherichia coli ribosome.

    Surojit Mondal

    Full Text Available BACKGROUND: The ribosome, which acts as a platform for mRNA encoded polypeptide synthesis, is also capable of assisting in folding of polypeptide chains. The peptidyl transferase center (PTC that catalyzes peptide bond formation resides in the domain V of the 23S rRNA of the bacterial ribosome. Proper positioning of the 3' -CCA ends of the A- and P-site tRNAs via specific interactions with the nucleotides of the PTC are crucial for peptidyl transferase activity. This RNA domain is also the center for ribosomal chaperoning activity. The unfolded polypeptide chains interact with the specific nucleotides of the PTC and are released in a folding competent form. In vitro transcribed RNA corresponding to this domain (bDV RNA also displays chaperoning activity. RESULTS: The present study explores the effects of tRNAs, antibiotics that are A- and P-site PTC substrate analogs (puromycin and blasticidin and macrolide antibiotics (erythromycin and josamycin on the chaperoning ability of the E. coli ribosome and bDV RNA. Our studies using mRNA programmed ribosomes show that a tRNA positioned at the P-site effectively inhibits the ribosome's chaperoning function. We also show that the antibiotic blasticidin (that mimics the interaction between 3'-CCA end of P/P-site tRNA with the PTC is more effective in inhibiting ribosome and bDV RNA chaperoning ability than either puromycin or the macrolide antibiotics. Mutational studies of the bDV RNA could identify the nucleotides U2585 and G2252 (both of which interact with P-site tRNA to be important for its chaperoning ability. CONCLUSION: Both protein synthesis and their proper folding are crucial for maintenance of a functional cellular proteome. The PTC of the ribosome is attributed with both these abilities. The silencing of the chaperoning ability of the ribosome in the presence of P-site bound tRNA might be a way to segregate these two important functions.

  10. Interstate Recognition and Its Global Overcoming: Extra-territorial Recognition

    Hrubec, Marek

    Praha: Filosofia, 2015 - (Oliveira, N.; Hrubec, M.; Sobottka, E.; Saavedra, G.), s. 287-323 ISBN 978-80-7007-435-0 R&D Projects: GA ČR(CZ) GA14-19416S Institutional support: RVO:67985955 Keywords : recognition * interstate * international * global * extra-territorial * justice * Axel Honneth Subject RIV: AA - Philosophy ; Religion

  11. Recognition of anxiety disorders by family physicians after rigorous medical record case extraction Results of the Netherlands Study of Depression and Anxiety

    Janssen, Evelien H. C.; van de Ven, Peter M.; Terluin, Berend; Verhaak, Peter F. M.; van Marwijk, Harm W. J.; Smolders, Mirrian; van der Meer, Klaas; Penninx, Brenda W. J. H.; van Hout, Hein P. J.

    2012-01-01

    Objective: Previous studies reported low and inconsistent rates of recognition of anxiety disorders by family physicians (FPs). Our objectives were to examine (a) which combination of indications within medical records most accurately reflects recognition of anxiety disorders and (b) whether patient

  12. Recognition of anxiety disorders by family physicians after rigorous medical record case extraction: results of the Netherlands Study of Depression and Anxiety.

    Janssen, E.H.C.; Ven, P.M. van de; Terluin, B.; Verhaak, P.F.M.; Marwijk, H.W.J. van; Smolders, M.; Meer, K. van der; Penninx, B.W.J.H.; Hout, H.P.J. van

    2012-01-01

    Objective: Previous studies reported low and inconsistent rates of recognition of anxiety disorders by family physicians (FPs). Our objectives were to examine (a) which combination of indications within medical records most accurately reflects recognition of anxiety disorders and (b) whether patient

  13. CCD camera automatic calibration technology and ellipse recognition algorithm

    Changku Sun; Xiaodong Zhang; Yunxia Qu

    2005-01-01

    A novel two-dimensional (2D) pattern used in camera calibration is presented. With one feature circle located at the center, an array of circles is photo-etched on this pattern. An ellipse recognition algorithm is proposed to implement the acquisition of interest calibration points without human intervention. According to the circle arrangement of the pattern, the relation between three-dimensional (3D) and 2D coordinates of these points can be established automatically and accurately. These calibration points are computed for intrinsic parameters calibration of charge-coupled device (CCD) camera with Tsai method. A series of experiments have shown that the algorithm is robust and reliable with the calibration error less than 0.4 pixel. This new calibration pattern and ellipse recognition algorithm can be widely used in computer vision.

  14. Is there an in-group advantage in emotion recognition?

    Elfenbein, Hillary Anger; Ambady, Nalini

    2002-03-01

    H. A. Elfenbein and N. Ambady (2002) examined the evidence for an in-group advantage in emotion recognition, whereby recognition is generally more accurate for perceivers from the same cultural group as emotional expressors. D. Matsumoto's (2002) comment centered on 3 asserted methodological requirements. This response addresses the lack of consensus conceming these "requirements" and demonstrates that none alter the presence of the in-group advantage. His analyses had a serious flaw and, once corrected, replicated the original findings. Furthermore, he described results from his empirical work not meeting a literal interpretation of his own requirements. Overall, where Matsumoto considers subtle cross-cultural differences in emotional expression a methodological artifact in judgment studies, the present authors find a core phenomenon worthy of attention. PMID:11931518

  15. Pattern Recognition of EEG Signals and Applications in Robotics

    ZHANG Xiao-dong; CHENG Zhi-qiang; LI De-jun

    2006-01-01

    With the rapid development of brain computer interface (simply called BCI),electroencephalography (EEG) will be another interesting bio-electrical signal applied in robotics after EMG.In order to realize it finally,the accurate measurement and pattern recognition of EEG signal must be a very important and elementary research objective.Based on our current researches and some reports from the other international colleagues in the field,we deeply discuss the basic characteristics of EEG signal,the development and selection of EEG measurement system,feature extraction and recognition methods of EEG signal,and then review EEG's applications in robotics as well as the future research trends in this paper.

  16. The own-age face recognition bias is task dependent.

    Proietti, Valentina; Macchi Cassia, Viola; Mondloch, Catherine J

    2015-08-01

    The own-age bias (OAB) in face recognition (more accurate recognition of own-age than other-age faces) is robust among young adults but not older adults. We investigated the OAB under two different task conditions. In Experiment 1 young and older adults (who reported more recent experience with own than other-age faces) completed a match-to-sample task with young and older adult faces; only young adults showed an OAB. In Experiment 2 young and older adults completed an identity detection task in which we manipulated the identity strength of target and distracter identities by morphing each face with an average face in 20% steps. Accuracy increased with identity strength and facial age influenced older adults' (but not younger adults') strategy, but there was no evidence of an OAB. Collectively, these results suggest that the OAB depends on task demands and may be absent when searching for one identity. PMID:25491773

  17. Automatic speech recognition for radiological reporting

    Large vocabulary speech recognition, its techniques and its software and hardware technology, are being developed, aimed at providing the office user with a tool that could significantly improve both quantity and quality of his work: the dictation machine, which allows memos and documents to be input using voice and a microphone instead of fingers and a keyboard. The IBM Rome Science Center, together with the IBM Research Division, has built a prototype recognizer that accepts sentences in natural language from 20.000-word Italian vocabulary. The unit runs on a personal computer equipped with a special hardware capable of giving all the necessary computing power. The first laboratory experiments yielded very interesting results and pointed out such system characteristics to make its use possible in operational environments. To this purpose, the dictation of medical reports was considered as a suitable application. In cooperation with the 2nd Radiology Department of S. Maria della Misericordia Hospital (Udine, Italy), a system was experimented by radiology department doctors during their everyday work. The doctors were able to directly dictate their reports to the unit. The text appeared immediately on the screen, and eventual errors could be corrected either by voice or by using the keyboard. At the end of report dictation, the doctors could both print and archive the text. The report could also be forwarded to hospital information system, when the latter was available. Our results have been very encouraging: the system proved to be robust, simple to use, and accurate (over 95% average recognition rate). The experiment was precious for suggestion and comments, and its results are useful for system evolution towards improved system management and efficency

  18. Pattern recognition in speech and language processing

    Chou, Wu

    2003-01-01

    Minimum Classification Error (MSE) Approach in Pattern Recognition, Wu ChouMinimum Bayes-Risk Methods in Automatic Speech Recognition, Vaibhava Goel and William ByrneA Decision Theoretic Formulation for Adaptive and Robust Automatic Speech Recognition, Qiang HuoSpeech Pattern Recognition Using Neural Networks, Shigeru KatagiriLarge Vocabulary Speech Recognition Based on Statistical Methods, Jean-Luc GauvainToward Spontaneous Speech Recognition and Understanding, Sadaoki FuruiSpeaker Authentication, Qi Li and Biing-Hwang JuangHMMs for Language Processing Problems, Ri

  19. Niche Genetic Algorithm with Accurate Optimization Performance

    LIU Jian-hua; YAN De-kun

    2005-01-01

    Based on crowding mechanism, a novel niche genetic algorithm was proposed which can record evolutionary direction dynamically during evolution. After evolution, the solutions's precision can be greatly improved by means of the local searching along the recorded direction. Simulation shows that this algorithm can not only keep population diversity but also find accurate solutions. Although using this method has to take more time compared with the standard GA, it is really worth applying to some cases that have to meet a demand for high solution precision.

  20. How accurately can we calculate thermal systems?

    The objective was to determine how accurately simple reactor lattice integral parameters can be determined, considering user input, differences in the methods, source data and the data processing procedures and assumptions. Three simple square lattice test cases with different fuel to moderator ratios were defined. The effect of the thermal scattering models were shown to be important and much bigger than the spread in the results. Nevertheless, differences of up to 0.4% in the K-eff calculated by continuous energy Monte Carlo codes were observed even when the same source data were used. (author)

  1. Accurate diagnosis is essential for amebiasis

    2004-01-01

    @@ Amebiasis is one of the three most common causes of death from parasitic disease, and Entamoeba histolytica is the most widely distributed parasites in the world. Particularly, Entamoeba histolytica infection in the developing countries is a significant health problem in amebiasis-endemic areas with a significant impact on infant mortality[1]. In recent years a world wide increase in the number of patients with amebiasis has refocused attention on this important infection. On the other hand, improving the quality of parasitological methods and widespread use of accurate tecniques have improved our knowledge about the disease.

  2. Investigations on Accurate Analysis of Microstrip Reflectarrays

    Zhou, Min; Sørensen, S. B.; Kim, Oleksiy S.;

    2011-01-01

    An investigation on accurate analysis of microstrip reflectarrays is presented. Sources of error in reflectarray analysis are examined and solutions to these issues are proposed. The focus is on two sources of error, namely the determination of the equivalent currents to calculate the radiation...... pattern, and the inaccurate mutual coupling between array elements due to the lack of periodicity. To serve as reference, two offset reflectarray antennas have been designed, manufactured and measured at the DTUESA Spherical Near-Field Antenna Test Facility. Comparisons of simulated and measured data are...

  3. a New Structure for Automatic Speech Recognition

    Duchnowski, Paul

    Speech is a wideband signal with cues identifying a particular element distributed across frequency. To capture these cues, most ASR systems analyze the speech signal into spectral (or spectrally-derived) components prior to recognition. Traditionally, these components are integrated across frequency to form a vector of "acoustic evidence" on which a decision by the ASR system is based. This thesis develops an alternate approach, post-labeling integration. In this scheme, tentative decisions or labels, of the identity of a given speech element are assigned in parallel by sub -recognizers, each operating on a band-limited portion of the speech waveform. Outputs of these independent channels are subsequently combined (integrated) to render the final decision. Remarkably good recognition of bandlimited nonsense syllables by humans leads to the consideration of this method. It also allows potentially more accurate parameterization of the speech waveform and simultaneously robust estimation of parameter probabilities. The algorithm also represents an attempt to make explicit use of redundancies in speech. Three basic methods of parameterizing the bandlimited input of the sub-recognizers were considered, focusing respectively on LPC and cepstrum coefficients, and parameters based on the autocorrelation function. Four sub-recognizers were implemented as discrete Hidden Markov Model (HMM) systems. Maximum A Posteriori (MAP) hypothesis testing approach was applied to the problem of integrating the individual sub-recognizer decisions on a frame by frame basis. Final segmentation was achieved by a secondary HMM. Five methods of estimating the probabilities necessary for MAP integration were tested. The proposed structure was applied to the task of phonetic, speaker-independent, continuous speech recognition. Performance for several combinations of parameterization schemes and integration methods was measured. The best score of 58.5% on a 39 phone alphabet is roughly

  4. A new paradigm for pattern recognition of drugs.

    Potemkin, Vladimir A; Grishina, Maria A

    2008-01-01

    A new paradigm is suggested for pattern recognition of drugs. The approach is based on the combined application of the 4D/3D quantitative structure-activity relationship (QSAR) algorithms BiS and ConGO. The first algorithm, BiS/MC (multiconformational), is used for the search for the conformers interacting with a receptor. The second algorithm, ConGO, has been suggested for the detailed study of the selected conformers' electron density and for the search for the electron structure fragments that determine the pharmacophore and antipharmacophore parts of the compounds. In this work we suggest using a new AlteQ method for the evaluation of the molecular electron density. AlteQ describes the experimental electron density (determined by low-temperature highly accurate X-ray analysis) much better than a number of quantum approaches. Herein this is shown using a comparison of the computed electron density with the results of highly accurate X-ray analysis. In the present study the desirability function is used for the first time for the analysis of the effects of the electron structure in the process of pattern recognition of active and inactive compounds. The suggested method for pattern recognition has been used for the investigation of various sets of compounds such as DNA-antimetabolites, fXa inhibitors, 5-HT(1A), and alpha(1)-AR receptors inhibitors. The pharmacophore and antipharmacophore fragments have been found in the electron structures of the compounds. It has been shown that the pattern recognition cross-validation quality for the datasets is unity. PMID:18357415

  5. A quantitative analysis of facial emotion recognition in obsessive-compulsive disorder.

    Daros, Alexander Robert; Zakzanis, Konstantine K; Rector, Neil Alexander

    2014-03-30

    Obsessive-Compulsive Disorder (OCD) is characterized by persistent and unwanted obsessions generally accompanied by ritualistic behaviors or compulsions. Previous research proposed specific disgust facial emotion recognition deficits in patients with OCD. This research however, remains largely inconsistent. Therefore, the results of 10 studies contrasting facial emotion recognition accuracy in patients with OCD (n=221) and non-psychiatric controls (n=224) were quantitatively reviewed and synthesized using meta-analytic techniques. Patients with OCD were less accurate than controls in recognizing emotional facial expressions. Patients were also less accurate in recognizing negative emotions as a whole; however, this was largely due to significant differences in disgust and anger recognition specifically. The results of this study suggest that patients with OCD have difficulty recognizing specific negative emotions in faces and may misclassify emotional expressions due to symptom characteristics within the disorder. The contribution of state-related emotion perception biases to these findings requires further clarification. PMID:24411075

  6. Robust Sign Language Recognition System Using ToF Depth Cameras

    Zahedi, Morteza

    2011-01-01

    Sign language recognition is a difficult task, yet required for many applications in real-time speed. Using RGB cameras for recognition of sign languages is not very successful in practical situations and accurate 3D imaging requires expensive and complex instruments. With introduction of Time-of-Flight (ToF) depth cameras in recent years, it has become easier to scan the environment for accurate, yet fast depth images of the objects without the need of any extra calibrating object. In this paper, a robust system for sign language recognition using ToF depth cameras is presented for converting the recorded signs to a standard and portable XML sign language named SiGML for easy transferring and converting to real-time 3D virtual characters animations. Feature extraction using moments and classification using nearest neighbor classifier are used to track hand gestures and significant result of 100% is achieved for the proposed approach.

  7. Collaborative Efforts to Promote Emergent Literacy and Efficient Word Recognition Skills

    Roth, Froma P.; Troia, Gary A.

    2006-01-01

    In this article, 3 models of collaboration between speech-language pathologists and classroom teachers are discussed to promote emergent literacy and accurate and fluent word recognition. These models are demonstration lessons, team teaching, and consultation. A number of instructional principles are presented for emergent literacy and decoding…

  8. Predicting the Accuracy of Facial Affect Recognition: The Interaction of Child Maltreatment and Intellectual Functioning

    Shenk, Chad E.; Putnam, Frank W.; Noll, Jennie G.

    2013-01-01

    Previous research demonstrates that both child maltreatment and intellectual performance contribute uniquely to the accurate identification of facial affect by children and adolescents. The purpose of this study was to extend this research by examining whether child maltreatment affects the accuracy of facial recognition differently at varying…

  9. Visual abilities are important for auditory-only speech recognition: evidence from autism spectrum disorder.

    Schelinski, Stefanie; Riedel, Philipp; von Kriegstein, Katharina

    2014-12-01

    In auditory-only conditions, for example when we listen to someone on the phone, it is essential to fast and accurately recognize what is said (speech recognition). Previous studies have shown that speech recognition performance in auditory-only conditions is better if the speaker is known not only by voice, but also by face. Here, we tested the hypothesis that such an improvement in auditory-only speech recognition depends on the ability to lip-read. To test this we recruited a group of adults with autism spectrum disorder (ASD), a condition associated with difficulties in lip-reading, and typically developed controls. All participants were trained to identify six speakers by name and voice. Three speakers were learned by a video showing their face and three others were learned in a matched control condition without face. After training, participants performed an auditory-only speech recognition test that consisted of sentences spoken by the trained speakers. As a control condition, the test also included speaker identity recognition on the same auditory material. The results showed that, in the control group, performance in speech recognition was improved for speakers known by face in comparison to speakers learned in the matched control condition without face. The ASD group lacked such a performance benefit. For the ASD group auditory-only speech recognition was even worse for speakers known by face compared to speakers not known by face. In speaker identity recognition, the ASD group performed worse than the control group independent of whether the speakers were learned with or without face. Two additional visual experiments showed that the ASD group performed worse in lip-reading whereas face identity recognition was within the normal range. The findings support the view that auditory-only communication involves specific visual mechanisms. Further, they indicate that in ASD, speaker-specific dynamic visual information is not available to optimize auditory

  10. Accurate radiative transfer calculations for layered media.

    Selden, Adrian C

    2016-07-01

    Simple yet accurate results for radiative transfer in layered media with discontinuous refractive index are obtained by the method of K-integrals. These are certain weighted integrals applied to the angular intensity distribution at the refracting boundaries. The radiative intensity is expressed as the sum of the asymptotic angular intensity distribution valid in the depth of the scattering medium and a transient term valid near the boundary. Integrated boundary equations are obtained, yielding simple linear equations for the intensity coefficients, enabling the angular emission intensity and the diffuse reflectance (albedo) and transmittance of the scattering layer to be calculated without solving the radiative transfer equation directly. Examples are given of half-space, slab, interface, and double-layer calculations, and extensions to multilayer systems are indicated. The K-integral method is orders of magnitude more accurate than diffusion theory and can be applied to layered scattering media with a wide range of scattering albedos, with potential applications to biomedical and ocean optics. PMID:27409700

  11. Accurate basis set truncation for wavefunction embedding

    Barnes, Taylor A.; Goodpaster, Jason D.; Manby, Frederick R.; Miller, Thomas F.

    2013-07-01

    Density functional theory (DFT) provides a formally exact framework for performing embedded subsystem electronic structure calculations, including DFT-in-DFT and wavefunction theory-in-DFT descriptions. In the interest of efficiency, it is desirable to truncate the atomic orbital basis set in which the subsystem calculation is performed, thus avoiding high-order scaling with respect to the size of the MO virtual space. In this study, we extend a recently introduced projection-based embedding method [F. R. Manby, M. Stella, J. D. Goodpaster, and T. F. Miller III, J. Chem. Theory Comput. 8, 2564 (2012)], 10.1021/ct300544e to allow for the systematic and accurate truncation of the embedded subsystem basis set. The approach is applied to both covalently and non-covalently bound test cases, including water clusters and polypeptide chains, and it is demonstrated that errors associated with basis set truncation are controllable to well within chemical accuracy. Furthermore, we show that this approach allows for switching between accurate projection-based embedding and DFT embedding with approximate kinetic energy (KE) functionals; in this sense, the approach provides a means of systematically improving upon the use of approximate KE functionals in DFT embedding.

  12. Accurate determination of characteristic relative permeability curves

    Krause, Michael H.; Benson, Sally M.

    2015-09-01

    A recently developed technique to accurately characterize sub-core scale heterogeneity is applied to investigate the factors responsible for flowrate-dependent effective relative permeability curves measured on core samples in the laboratory. The dependency of laboratory measured relative permeability on flowrate has long been both supported and challenged by a number of investigators. Studies have shown that this apparent flowrate dependency is a result of both sub-core scale heterogeneity and outlet boundary effects. However this has only been demonstrated numerically for highly simplified models of porous media. In this paper, flowrate dependency of effective relative permeability is demonstrated using two rock cores, a Berea Sandstone and a heterogeneous sandstone from the Otway Basin Pilot Project in Australia. Numerical simulations of steady-state coreflooding experiments are conducted at a number of injection rates using a single set of input characteristic relative permeability curves. Effective relative permeability is then calculated from the simulation data using standard interpretation methods for calculating relative permeability from steady-state tests. Results show that simplified approaches may be used to determine flowrate-independent characteristic relative permeability provided flow rate is sufficiently high, and the core heterogeneity is relatively low. It is also shown that characteristic relative permeability can be determined at any typical flowrate, and even for geologically complex models, when using accurate three-dimensional models.

  13. Accurate shear measurement with faint sources

    Zhang, Jun; Foucaud, Sebastien [Center for Astronomy and Astrophysics, Department of Physics and Astronomy, Shanghai Jiao Tong University, 955 Jianchuan road, Shanghai, 200240 (China); Luo, Wentao, E-mail: betajzhang@sjtu.edu.cn, E-mail: walt@shao.ac.cn, E-mail: foucaud@sjtu.edu.cn [Key Laboratory for Research in Galaxies and Cosmology, Shanghai Astronomical Observatory, Nandan Road 80, Shanghai, 200030 (China)

    2015-01-01

    For cosmic shear to become an accurate cosmological probe, systematic errors in the shear measurement method must be unambiguously identified and corrected for. Previous work of this series has demonstrated that cosmic shears can be measured accurately in Fourier space in the presence of background noise and finite pixel size, without assumptions on the morphologies of galaxy and PSF. The remaining major source of error is source Poisson noise, due to the finiteness of source photon number. This problem is particularly important for faint galaxies in space-based weak lensing measurements, and for ground-based images of short exposure times. In this work, we propose a simple and rigorous way of removing the shear bias from the source Poisson noise. Our noise treatment can be generalized for images made of multiple exposures through MultiDrizzle. This is demonstrated with the SDSS and COSMOS/ACS data. With a large ensemble of mock galaxy images of unrestricted morphologies, we show that our shear measurement method can achieve sub-percent level accuracy even for images of signal-to-noise ratio less than 5 in general, making it the most promising technique for cosmic shear measurement in the ongoing and upcoming large scale galaxy surveys.

  14. Non-intrusive appliance recognition

    Hoogsteen, G; Krist, J.O.; Bakker, V.; Smit, G.J.M.

    2012-01-01

    Energy conservation becomes more important nowadays. The use of smart meters and, in the near future, smart appliances, are the key to achieve reduction in energy consumption. This research proposes a non-intrusive appliance monitor and recognition system for implementation on an embedded system. Th

  15. Speech Recognition on Mobile Devices

    Tan, Zheng-Hua; Lindberg, Børge

    2010-01-01

    The enthusiasm of deploying automatic speech recognition (ASR) on mobile devices is driven both by remarkable advances in ASR technology and by the demand for efficient user interfaces on such devices as mobile phones and personal digital assistants (PDAs). This chapter presents an overview of ASR...

  16. Sphere recognition lies in NP

    Schleimer, Saul

    2004-01-01

    We prove that the three-sphere recognition problem lies in the complexity class NP. Our work relies on Thompson's original proof that the problem is decidable [Math. Res. Let., 1994], Casson's version of her algorithm, and recent results of Agol, Hass, and Thurston [ArXiv, 2002].

  17. Named Entity Recognition for IDEAL

    Du, Qianzhou; Xuan ZHANG

    2015-01-01

    This project explored how to apply Named Entity Recognition to large Twitter and web page datasets to extract useful entities such as people, organization, location, and date. In addition, this NER utility has been scaled to the MapReduce framework on the Hadoop cluster. A schema and software allow this to be integrated with IDEAL.

  18. Sphere Recognition: Heuristics and Examples

    Joswig, Michael; Lutz, Frank H.; Tsuruga, Mimi

    2014-01-01

    Heuristic techniques for recognizing PL spheres using the topological software polymake are presented. These methods have been successful very often despite sphere recognition being known to be hard (for dimensions $d \\ge 3$) or even undecidable (for $d \\ge 5$). A deeper look into the simplicial complexes for which the heuristics failed uncovered a trove of examples having interesting topological and combinatorial properties.

  19. Target recognition by wavelet transform

    Li Zheng Dong; He Wu Liang; Pei Chun Lan; Peng Wen; SongChen; Zheng Xiao Dong

    2002-01-01

    Wavelet transform has an important character of multi-resolution power, which presents pyramid structure, and this character coincides the way by which people distinguish object from coarse to fineness and from large to tiny. In addition to it, wavelet transform benefits to reducing image noise, simplifying calculation, and embodying target image characteristic point. A method of target recognition by wavelet transform is provided

  20. Innovative Technique for Character Recognition

    Sumant Raj Chauhan

    2010-10-01

    Full Text Available Development of OCRs for Indian script is an active area of activity today. Optical character recognition (OCR is the mechanical or electronic translation of images of handwritten, typewritten or printed text (usually captured by a scanner into machine-editable text. In simple words OCR is a visual recognition process that turns printed or written text into an electronic character based file. OCR is a field of research in pattern recognition, artificial intelligence and machine vision. Indian scripts present great challenges to an OCR designer due to the large number of letters in the alphabet, the sophisticated ways in which they combine, and the complicated graphemes they result in. The problem is compounded by the unstructured manner in which popular fonts are designed. There is a lot of common structure in the different Indian scripts. All existing OCR systems developed for various Indian scripts do not provide sufficient efficiency due to various factors. The objective of this paper is to discuss a more efficient character recognition technique. This paper introduces a new technical approach to recognize Indian script characters which are unpredictable due to different problems in other OCR’s.

  1. Iris Recognition Using Fuzzy System

    Prof.D.D.Patil; Prof.N.A.Nemade; K.M.Attarde

    2013-01-01

    By using biometric system automatic recognition of an individual is provided. Biometric systems include fingerprints, facial features, voice, hand geometry, handwriting, the retina and the one presented inthis thesis, the iris. Working of this system is simple. It captures the image and compare with exiting image. If match is found then access is granted.

  2. Face recognition for uncontrolled environments

    Podilchuk, Christine; Hulbert, William; Flachsbart, Ralph; Barinov, Lev

    2010-04-01

    A new face recognition algorithm has been proposed which is robust to variations in pose, expression, illumination and occlusions such as sunglasses. The algorithm is motivated by the Edit Distance used to determine the similarity between strings of one dimensional data such as DNA and text. The key to this approach is how to extend the concept of an Edit Distance on one-dimensional data to two-dimensional image data. The algorithm is based on mapping one image into another and using the characteristics of the mapping to determine a two-dimensional Pictorial-Edit Distance or P-Edit Distance. We show how the properties of the mapping are similar to insertion, deletion and substitution errors defined in an Edit Distance. This algorithm is particularly well suited for face recognition in uncontrolled environments such as stand-off and other surveillance applications. We will describe an entire system designed for face recognition at a distance including face detection, pose estimation, multi-sample fusion of video frames and identification. Here we describe how the algorithm is used for face recognition at a distance, present some initial results and describe future research directions.(

  3. Mobile Visual Recognition on Smartphones

    Zhenwen Gui

    2013-01-01

    Full Text Available This paper addresses the recognition of large-scale outdoor scenes on smartphones by fusing outputs of inertial sensors and computer vision techniques. The main contributions can be summarized as follows. Firstly, we propose an ORD (overlap region divide method to plot image position area, which is fast enough to find the nearest visiting area and can also reduce the search range compared with the traditional approaches. Secondly, the vocabulary tree-based approach is improved by introducing GAGCC (gravity-aligned geometric consistency constraint. Our method involves no operation in the high-dimensional feature space and does not assume a global transform between a pair of images. Thus, it substantially reduces the computational complexity and memory usage, which makes the city scale image recognition feasible on the smartphone. Experiments on a collected database including 0.16 million images show that the proposed method demonstrates excellent recognition performance, while maintaining the average recognition time about 1 s.

  4. Simultaneous Tracking and Activity Recognition

    Manfredotti, Cristina Elena; Fleet, David J.; Hamilton, Howard J.;

    2011-01-01

    recognition, our framework performs these two tasks simultaneously. In particular, we adopt a Bayesian standpoint where the system maintains a joint distribution of the positions, the interactions and the possible activities. This turns out to be advantegeous, as information about the ongoing activities can...

  5. Target recognition by wavelet transform

    Wavelet transform has an important character of multi-resolution power, which presents pyramid structure, and this character coincides the way by which people distinguish object from coarse to fineness and from large to tiny. In addition to it, wavelet transform benefits to reducing image noise, simplifying calculation, and embodying target image characteristic point. A method of target recognition by wavelet transform is provided

  6. EXPLICIT RECOGNITION OF EMOTIONAL FACIAL EXPRESSIONS IS SHAPED BY EXPERTISE: EVIDENCE FROM PROFESSIONAL ACTORS

    Massimiliano eConson

    2013-06-01

    Full Text Available Can reading others’ emotional states be shaped by expertise? We assessed processing of emotional facial expressions in professional actors trained either to voluntary activate mimicry to reproduce character’s emotions (as foreseen by the Mimic Method, or to infer others’ inner states from reading the emotional context (as foreseen by Stanislavski Method. In explicit recognition of facial expressions (Experiment 1, the two experimental groups differed from each other and from a control group with no acting experience: the Mimic group was more accurate, whereas the Stanislavski group was slower. Neither acting experience, instead, influenced implicit processing of emotional faces (Experiment 2. We argue that expertise can selectively influence explicit recognition of others’ facial expressions, depending on the kind of emotional expertise. These results demonstrate that not only simulative processes involved in action recognition but also those related to more complex aspects of social cognition (such as emotion recognition can be affected by expertise.

  7. REAL-TIME FACE RECOGNITION BASED ON OPTICAL FLOW AND HISTOGRAM EQUALIZATION

    D. Sathish Kumar

    2013-05-01

    Full Text Available Face recognition is one of the intensive areas of research in computer vision and pattern recognition but many of which are focused on recognition of faces under varying facial expressions and pose variation. A constrained optical flow algorithm discussed in this paper, recognizes facial images involving various expressions based on motion vector computation. In this paper, an optical flow computation algorithm which computes the frames of varying facial gestures, and integrating with synthesized image in a probabilistic environment has been proposed. Also Histogram Equalization technique has been used to overcome the effect of illuminations while capturing the input data using camera devices. It also enhances the contrast of the image for better processing. The experimental results confirm that the proposed face recognition system is more robust and recognizes the facial images under varying expressions and pose variations more accurately.

  8. Emotion Recognition in Blended Facial Expressions in Women with Anorexia Nervosa.

    Dapelo, Marcela Marin; Surguladze, Simon; Morris, Robin; Tchanturia, Kate

    2016-01-01

    People with anorexia nervosa (AN) have difficulties in the social domain, and problems in the ability to recognise emotions in people's faces may contribute to these difficulties. This study aimed to investigate emotion recognition in women with AN and healthy controls (HC), using pictures of faces portraying blended emotions at different levels of ambiguity, which resemble real-life expressions more closely than prototypical expressions used in past studies. Seventy-seven participants (35 AN; 42 HC) completed the emotion recognition task. Results indicated that participants with AN were less accurate than HC recognising expressions of disgust, when shown less ambiguously. There were no differences in the recognition of other emotions. Participants with AN also showed response bias towards anger. These findings suggest a generally preserved ability to recognise emotions in women with AN, with the exception of disgust recognition. They also support previous findings of bias towards anger in AN patients. PMID:26364834

  9. The role of spatial frequency in expert object recognition.

    Hagen, Simen; Vuong, Quoc C; Scott, Lisa S; Curran, Tim; Tanaka, James W

    2016-03-01

    Novices recognize objects at the basic-category level (e.g., dog, chair, and bird) at which identification is based on the global form of the objects (Rosch, Mervis, Gray, Johnson, & Boyes-Braem, 1976). In contrast, experts recognize objects within their domain of expertise at the subordinate level (e.g., Sparrow or Finch) for which the internal object information may play an important role in identification (Tanaka & Taylor, 1991). To investigate whether expert recognition relies on internal object information, we band-pass filtered bird images over a range of spatial frequencies (SF) and then masked the filtered image to preserve its global form. In Experiment 1, bird experts categorized common birds at the family level (e.g., Robin or Sparrow) more quickly and more accurately than novices. Both experts and novices were more accurate when bird images contained the internal information represented by a middle range of SFs, and this finding was characterized by a quadratic function in which accuracy decreased toward each end of the SF spectrum. However, the experts, but not the novices, showed a similar quadratic relationship between response times and SF range. In Experiment 2, experts categorized Warblers and Finches at the more specific, species level (e.g., Wilson's Warbler or House Finch). Recognition was again fastest and most accurate for images filtered in the middle range of SFs. Collectively, these results indicate that a midrange of SFs contain crucial information for subordinate recognition, and that extensive perceptual experience can influence the efficiency with which this information is utilized. (PsycINFO Database Record PMID:26480250

  10. Encoding conditions affect recognition of vocally expressed emotions across cultures

    RebeccaJürgens

    2013-03-01

    Full Text Available Although the expression of emotions in humans is considered to be largely universal, cultural effects contribute to both emotion expression and recognition. To disentangle the interplay between these factors, play-acted and authentic (non-instructed vocal expressions of emotions were used, on the assumption that cultural effects may contribute differentially to the recognition of staged and spontaneous emotions. Speech tokens depicting four emotions (anger, sadness, joy, fear were obtained from German radio archives and reenacted by professional actors, and presented to 120 participants from Germany, Romania, and Indonesia. Participants in all three countries were poor at distinguishing between play-acted and spontaneous emotional utterances (58.73% correct on average with only marginal cultural differences. Nevertheless, authenticity influenced emotion recognition: across cultures, anger was recognized more accurately when play-acted (z = 15.06, p < .001 and sadness when authentic (z = 6.63, p < .001, replicating previous findings from German populations. German subjects revealed a slight advantage in recognizing emotions, indicating a moderate in-group advantage. There was no difference between Romanian and Indonesian subjects in the overall emotion recognition. Differential cultural effects became particularly apparent in terms of differential biases in emotion attribution. While all participants labeled play-acted expressions as anger more frequently than expected, German participants exhibited a further bias towards choosing anger for spontaneous stimuli. In contrast to the German sample, Romanian and Indonesian participants were biased towards choosing sadness. These results support the view that emotion recognition rests on a complex interaction of human universals and cultural specificities. Whether and in which way the observed biases are linked to cultural differences in self-construal remains an issue for further investigation.

  11. Digital Recognition using Neural Network

    Saleh A.K. Al-Omari

    2009-01-01

    Full Text Available Problem statement: Handwriting number recognition is a challenging problem researchers had been research into this area for so long especially in the recent years. In our study there are many fields concern with numbers, for example, checks in banks or recognizing numbers in car plates, the subject of digit recognition appears. A system for recognizing isolated digits may be as an approach for dealing with such application. In other words, to let the computer understand the Arabic numbers that is written manually by users and views them according to the computer process. Scientists and engineers with interests in image processing and pattern recognition have developed various approaches to deal with handwriting number recognition problems such as, minimum distance, decision tree and statistics. Approach: The main objective for our system was to recognize isolated Arabic digits exist in different applications. For example, different users had their own handwriting styles where here the main challenge falls to let computer system understand these different handwriting styles and recognize them as standard writing. Result: We presented a system for dealing with such problem. The system started by acquiring an image containing digits, this image was digitized using some optical devices and after applying some enhancements and modifications to the digits within the image it can be recognized using feed forward back propagation algorithm. The studies were conducted on the Arabic handwriting digits of 10 independent writers who contributed a total of 1300 isolated Arabic digits these digits divided into two data sets: Training 1000 digits, testing 300 digits. An overall accuracy meet using this system was 95% on the test data set used. Conclusion: We developed a system for Arabic handwritten recognition. And we efficiently choose a segmentation method to fit our demands. Our system successfully designs and implement a neural network which efficiently

  12. Public domain optical character recognition

    Garris, Michael D.; Blue, James L.; Candela, Gerald T.; Dimmick, Darrin L.; Geist, Jon C.; Grother, Patrick J.; Janet, Stanley A.; Wilson, Charles L.

    1995-03-01

    A public domain document processing system has been developed by the National Institute of Standards and Technology (NIST). The system is a standard reference form-based handprint recognition system for evaluating optical character recognition (OCR), and it is intended to provide a baseline of performance on an open application. The system's source code, training data, performance assessment tools, and type of forms processed are all publicly available. The system recognizes the handprint entered on handwriting sample forms like the ones distributed with NIST Special Database 1. From these forms, the system reads hand-printed numeric fields, upper and lowercase alphabetic fields, and unconstrained text paragraphs comprised of words from a limited-size dictionary. The modular design of the system makes it useful for component evaluation and comparison, training and testing set validation, and multiple system voting schemes. The system contains a number of significant contributions to OCR technology, including an optimized probabilistic neural network (PNN) classifier that operates a factor of 20 times faster than traditional software implementations of the algorithm. The source code for the recognition system is written in C and is organized into 11 libraries. In all, there are approximately 19,000 lines of code supporting more than 550 subroutines. Source code is provided for form registration, form removal, field isolation, field segmentation, character normalization, feature extraction, character classification, and dictionary-based postprocessing. The recognition system has been successfully compiled and tested on a host of UNIX workstations. This paper gives an overview of the recognition system's software architecture, including descriptions of the various system components along with timing and accuracy statistics.

  13. Ear Recognition Based on Forstner and SIFT

    Ma Chi

    2013-07-01

    Full Text Available Extraction and expression of features are critical to improving the recognition rate of ear image recognition. This paper proposes a new ear recognition method based on SIFT(Scale-invariant feature transform and Forstner corner detection technology. Firstly, Forstner corner points and SIFT keypoints are detected respectively. Then taking Forstner corner into the SIFT algorithm to calculate their descriptor as the image feature vectors. Finally ear recognition based on these feature is carried out with Euclidean distance as similarity measurement. A bi-directional matching algorithm is utilized for improving recognition rate. Experiments on USTB database show that the recognition rate reaches more 94%. The Experimental results prove the effectiveness of the proposed method in term of recognition accuracy in comparison with previous methods. It is robust to rigid changes of ear image and provides a new approach to the research for ear recognition.

  14. Pattern recognition of soils and crops from space

    Leamer, R. W.; Wiegand, C. L.; Weber, D. A.

    1975-01-01

    An evaluation is conducted of the relative effectiveness of the computer analysis techniques which are commonly employed to extract land use (crop identification) information from digitized aerial photographs. It is found that the minimum distance to the mean (MDM) algorithm and the maximum likelihood ratio (MLR) can both be used for the successful recognition of land-use patterns. The MDM algorithm is slightly more accurate in cases involving the use of three or more variables. The use of the MLR algorithm, however, is preferable in cases in which less than three variables are employed.

  15. Ear Recognition Based on Forstner and SIFT

    Ma Chi; Zhu Yongyong; Tian Ying

    2013-01-01

    Extraction and expression of features are critical to improving the recognition rate of ear image recognition. This paper proposes a new ear recognition method based on SIFT(Scale-invariant feature transform) and Forstner corner detection technology. Firstly, Forstner corner points and SIFT keypoints are detected respectively. Then taking Forstner corner into the SIFT algorithm to calculate their descriptor as the image feature vectors. Finally ear recognition based on these feature is carrie...

  16. Pattern recognition, machine intelligence and biometrics

    Wang, Patrick S P

    2012-01-01

    ""Pattern Recognition, Machine Intelligence and Biometrics"" covers the most recent developments in Pattern Recognition and its applications, using artificial intelligence technologies within an increasingly critical field. It covers topics such as: image analysis and fingerprint recognition; facial expressions and emotions; handwriting and signatures; iris recognition; hand-palm gestures; and multimodal based research. The applications span many fields, from engineering, scientific studies and experiments, to biomedical and diagnostic applications, to personal identification and homeland secu

  17. Face Recognition Techniques - An evaluation Study

    Dr.Asmahan M Altaher

    2015-01-01

    Face recognition is the ability of categorize a set of images based on certain discriminatory features. Classification of the recognition patterns can be difficult problem and it is still very active field of research. The paper introduces conceptual framework for descriptive study on techniques of face recognition systems. It aims to describe the previous researches have been study the face recognition system, in order scope on the algorithms, usages, benefits , challenges and problems in th...

  18. Recognition of an Independent Self-Consciousness

    Bjerre, Henrik Jøker

    2009-01-01

    Hegel's concept in the Phenomenology of the Spirit of the "recognition of an independent self-consciousness" is investigated as a point of separation for contemporary philosophy of recognition. I claim that multiculturalism and the theories of recognition (such as Axel Honneth's) based on empiric...... psychology neglect or deny crucial metaphysical aspects of the Hegelian legacy. Instead, I seek to point at an additional, "spiritual", level of recognition, based on the concept of the subject in Lacanian psychoanalysis....

  19. Arabic natural language processing: handwriting recognition

    Belaïd, Abdel

    2008-01-01

    The automatic recognition of Arabic writing is a very young research discipline with very challenging and significant problems. Indeed, with the air of the Internet, of Multimedia, the recognition of Arabic is useful to contributing like its close disciplines, Latin writing recognition, speech recognition and Vision processing, in current applications around digital libraries, document security and in numerical data processing in general. Arabic is a Semitic language spoken and understood in ...

  20. Exemplar Based Recognition of Visual Shapes

    Olsen, Søren I.

    2005-01-01

    This paper presents an approach of visual shape recognition based on exemplars of attributed keypoints. Training is performed by storing exemplars of keypoints detected in labeled training images. Recognition is made by keypoint matching and voting according to the labels for the matched keypoint....... The matching is insensitive to rotations, limited scalings and small deformations. The recognition is robust to noise, background clutter and partial occlusion. Recognition is possible from few training images and improve with the number of training images....