Papers - YAMAMORI Kunihito
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Development of Exon Region Extracting Method by GMDH and GA from DNA Sequences
Ohta Kouji, Yoshihara Ikuo, Yamamori Kunihito, Yasunaga Moritoshi
宮崎大學工學部紀要 34 275 - 280 2005.8
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：宮崎大学
Abstract ###A model building method based on Group Method of Data Handling (GMDH) optimized by ###GA is developed for extracting exon regions. GMDH, that is originally a method to construct ###higher order polynomial models, is extended to constructing complex logical model. ###The proposed method automatically builds a model for extraction and selects optimal ###important parts of DNA sequence..
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Extracting Transcription Regulatory Elements in Dictyostelium Discoideum
Onitani Toshiro, Yoshihara Ikuo, Yamamori Kunihito, Yasunaga Moritoshi
宮崎大學工學部紀要 34 281 - 286 2005.8
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：宮崎大学
Abstract ###Finding transcription regulatory elements (TREs) is one of the most important tasks in the ###field of genome informatics. The objective of this research is to extract TREs in DNA sequences of ###Dictyostelium discoideum (D.discoideum). Extracting characteristic patterns in DNA sequences is ###important to find TREs. We propose indices (Score M, Score T) to extract characteristic patterns in ###D.discoideum. Score M is proposed to extract patterns appeared in common region of DNA ###sequences. Score T is proposed to extract repeated patterns in common region of DNA sequences. ###Characteristic patterns according to Score M and Score T are extracted from non-transcribed ###region of Dictyostelium discoideum. The experimental Result shows that Score M and Score T are ###effective to extract targeted patterns.
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Identification of Exon-Intron Boundary by Hidden Markov Model and Evaluation with the Human Genome
Arimura Kazuhiko, Yoshihara Ikuo, Yamamori Kunihito
宮崎大學工學部紀要 34 269 - 274 2005.8
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：宮崎大学
Abstract ###It is important clarifying the function of the gene to extract exon, because exon is translated into the ###protein. In this laboratory has worked on the research of an automatic extraction of exon by using genetic ###programming (GP) and neural net work (NN). In this research, it has automatic of exon of human genome ###extracted it by using HMM as a comparison technique with these techniques. As a result, the identification ###accuracy of GT boundary became 90.7% and the identification accuracy in the AG boundary became 84.8%. ###Moreover, the comparison verification was done with HMM, GP, and NN.
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Segmentation and GA-based Optimization of Transmission-Line on Printed Circuit Board
Koizumi Naoki, Yoshihara Ikuo, Yamamori Kunihito, Yasunaga Moritoshi
宮崎大學工學部紀要 34 263 - 268 2005.8
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：宮崎大学
Abstract ###The distortion of signal wave form is a major problem in higher frequency of signals on ###printed circuit board. To overcome this problem, the idea which changes transmission line width ###and positively using the reflection wave was proposed. However, it is difficult to apply realistic ###scale circuit because that method needs a lot of parameters. Thus, we propose the idea to reduce ###parameters and develop the method which decides parameters using GA. Next, we design actual ###clock line with a memory module and evaluate our new method.
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Development of "CASPER" : A Client Independent Management System for PC Clusters
Yamamori Kunihito, Kurino Tsutomu, Yoshihara Ikuo, Aikawa Masaru
Memoirs of the Faculty of Engineering, Miyazaki University 34 257 - 262 2005.8
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：Miyazaki University
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Fuzzy-based Wave Height Forecast for Surfing
Yoshihara Ikuo, Kawano Takaya, Yamamori Kunihito
Memoirs of the Faculty of Engineering, Miyazaki University 34 293 - 300 2005.8
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：Miyazaki University
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Composition of Indoor Landscape from Partially Shot Pictures
Yoshihara Ikuo, Hirahara Shinichi, Yamamori Kunihito
Memoirs of the Faculty of Engineering, Miyazaki University 34 287 - 292 2005.8
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：Miyazaki University
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クライアント環境に依存しないPCクラスタ管理システム『CASPER』の開発
山森一人,栗野勉,吉原郁夫,相川勝
宮崎大学工学部紀要 34 257 - 262 2005.8
Language：Japanese Publishing type：Research paper (bulletin of university, research institution)
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Segmentation and GA-based Optimization of Transmission-Line on Printed Circuit Board
N.Koizumi,I.Yoshihara,K.Yamamori,M.Yasunaga
Memoirs of the Faculty of Engineering, Miyazaki University 34 263 - 268 2005.8
Language：English Publishing type：Research paper (bulletin of university, research institution)
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Identification of Exon-Intron Boundary by Hidden Markov Model and Evaluation with the Human Genome
K.Arimura,I.Yoshihara,K.Yamamori
Memoirs of the Faculty of Engineering, Miyazaki University 34 269 - 274 2005.8
Language：English Publishing type：Research paper (bulletin of university, research institution)
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Development of Exon Region Extracting Method by GMDH and GA from DNA Sequences
K.Ohta,I.Yoshihara,K.Yamamori,M.Yasunaga
Memoirs of the Faculty of Engineering, Miyazaki University 34 275 - 280 2005.8
Language：English Publishing type：Research paper (bulletin of university, research institution)
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Extracting Transcription Regulatory Elements in Dictyostelium Discoideum
T.Onitani,I.Yoshihara,K.Yamamori,M.Yasunaga
Memoirs of the Faculty of Engineering, Miyazaki University 34 281 - 286 2005.8
Language：English Publishing type：Research paper (bulletin of university, research institution)
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複数撮影画像からの建物内景観の合成法
吉原郁夫,平原慎一,山森一人
宮崎大学工学部紀要 34 287 - 292 2005.8
Language：Japanese Publishing type：Research paper (bulletin of university, research institution)
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ファジィ推論を用いたサーフィンのための波高予測
吉原郁夫,河野高也,山森一人
宮崎大学工学部紀要 34 293 - 300 2005.8
Language：Japanese Publishing type：Research paper (bulletin of university, research institution)
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Nucleotide sequence and expression of three subtypes of proopiomelanocortin mRNA in barfin flounder
Takahashi A., Amano M., Itoh T., Yasuda A., Yamanome T., Amemiya Y., Sasaki K., Sakai M., Yamamori K., Kawauchi H.
General and Comparative Endocrinology 141 ( 3 ) 291 - 303 2005.5
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：General and Comparative Endocrinology
Melanophore-stimulating hormone (MSH) has been shown to be associated with food intake in addition to body color change in teleosts. MSH is encoded by a proopiomelanocortin (POMC) gene together with endorphin (END). To assess the significance of MSH to biological activities, we determined the structure and evaluated the expression of POMC mRNA in barfin flounder (bf), Verasper moseri, a member of a group of teleosts, Pleuronectiformes. Three subtypes of POMC cDNAs (A, B, and C) were amplified from bf pituitary glands. These bfPOMCs contained segments for N-POMC, α-MSH, β-MSH, and β-END as do other teleost POMCs, while POMC-C showed remarkable variations in the segments corresponding to N-POMC and β-END. A phylogenetic tree of ray-finned fish POMCs constructed by the neighbor joining method revealed that the three POMC subtypes may have appeared as a result of duplication events occurring at least twice during the course of bf evolution. The first duplication may have generated the lineage leading to an ancestor of bfPOMC-A and -B and that leading to bfPOMC-C, and then the lineage of bfPOMC-A may have diverged from that of bfPOMC-B. All peptides flanked by processing signals excluding N-POMC-C (1-14) were identified in a single pituitary extract by mass spectrometry, and the cDNAs of three POMCs were amplified from a single pituitary by reverse transcription polymerase chain reaction. These results demonstrated that the three POMC genes are expressed in a single individual. While the bfPOMC-A gene was exclusively expressed in the pituitary, the bfPOMC-B and -C genes were expressed in non-pituitary tissues such as brain, gill, heart, spleen, liver, stomach, intestine, testis, muscle, blood, and skin in addition to the pituitary. The expression levels of the POMC-A, -B, and -C genes in pituitary neurointermediate lobe were greater in the fish reared with a black background than the fish reared with a white background, indicating that MSH derived from all of the three bfPOMC genes was associated with body color change. No difference was observed in the expression levels of bfPOMC-C in the brain in response to feeding status. © 2005 Elsevier Inc. All rights reserved.
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Optimization of camera positions for taking all indoor sceneries by GA Reviewed
Y.Tominari, T.Nakagawa, K.Yamamori, I.Yoshihara, H.Takeda
Proc. Artificial Life and Robotics 2005 GS8-1 2005.2
Language：English Publishing type：Research paper (international conference proceedings)
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A Multi-modal Neural Network with Single-State Predictions for Protein Secondary Structure Reviewed
H.Zhu, I.Yoshihara, K.Yamamori, M.Yasunaga
The International Journal of Artificial Life and Robotics 8 ( 2 ) 168 - 173 2004.11
Language：English Publishing type：Research paper (scientific journal)
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Gmdh-based Model Optimized by GA for Extracting Exon Regions from DNA Sequences
K.Ohta, I.Yoshihara, K.Yamamori, M.Yasunaga
Proc. Simulated Evolution and Learning 2004 SWP-8-2 2004.10
Language：English Publishing type：Research paper (international conference proceedings)
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GMDH-GA Hybrid Model Extracting Exon Region from DNA Sequences
Ohta Kouji, Yoshihara Ikuo, Yamamori Kunihito, Yasunaga Moritoshi
宮崎大學工學部紀要 33 289 - 294 2004.10
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：宮崎大学
Abstract ###A model building method based on Group Method of Data Handling (GMDH) optimized by ###GA is developed for extracting exon regions. GMDH, that is originally a method to construct ###higher order polynomial model, is extended to constructing higher order logical model. ###The model built by proposed method is compared with Genetic Programming (GP)-based ###model as to the extraction rate of best, worst and average. The proposed method is superior to GP ###as to extraction rate of all for intron-exon boundary.
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Onitani Toshiro, Yoshihara Ikuo, Yamamori Kunihito, Yasunaga Moritoshi
宮崎大學工學部紀要 33 301 - 306 2004.10
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：宮崎大学
Abstract ###Finding transcription regulatory pattern of Dictyostelium discoideum (D. discoideum) is ###one of the most important tasks in genomics. Life cycle of D. discoideum is divided into ###vegetative stage and morphogenesis stage. The goal of this paper is to develop the technique for ###extracting the feature patterns in vegetative stage and morphogenesis stage. We calculate each ###score for candidate patterns ("aaaaaaaa"-"tttttttt") by matching these candidate patterns to ###DNA sequence of D. discoideum. The feature patterns of vegetative stage and morphogenesis ###stage are extracted by comparing scores of morphogenesis stage with those of vegetative stage. ###Experiments reveal that "cagcagca", "agcagcac", "gagagaga", "cagcatca", and ###"caccagca" appear in vegetative stage more than morphogenesis stage, and "cacaccc", ###"gtgtgtgt","acgactac","acacaccc",and "ctactact" appear in morphogenesis stage more than vegetative stage.