• 한국생물정보학회:학술대회논문집
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• 한국생물정보시스템생물학회 2003년도 제2차 연례학술대회 발표논문집
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• pp.133-138
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• 2003

The prediction of protein secondary structure has been an important bioinformatics tool that is an essential component of the template-based protein tertiary structure prediction process. It has been known that the predicted secondary structure information improves both the fold recognition performance and the alignment accuracy. In this paper, we describe several novel ideas that may improve the prediction accuracy. The main idea is motivated by an observation that the protein's structural information, especially when it is combined with the evolutionary information, significantly improves the accuracy of the predicted tertiary structure. From the non-redundant set of protein structures, we derive the 'potential' parameters for the protein secondary structure prediction that contains the structural information of proteins, by following the procedure similar to the way to derive the directional information table of GOR method. Those potential parameters are combined with the frequency matrices obtained by running PSI-BLAST to construct the feature vectors that are used to train the support vector machines (SVM) to build the secondary structure classifiers. Moreover, the problem of huge model file size, which is one of the known shortcomings of SVM, is partially overcome by reducing the size of training data by filtering out the redundancy not only at the protein level but also at the feature vector level. A preliminary result measured by the average three-state prediction accuracy is encouraging.

• 한국멀티미디어학회논문지
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• 제18권10호
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• pp.1205-1215
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• 2015

Efficient multi-view coding techniques are needed to reduce the complexity of multi-view video which increases in proportion to the number of cameras. To reduce the complexity and maintain image quality and bit-rates, an motion estimation method and temporal prediction structure are proposed in this paper. The proposed motion estimation method exploits the characteristic of motion vector distribution and the motion direction and motion size of the block to place search points and decide the search patten adaptively. And the proposed prediction structure divides every GOP to decide the maximum index of hierarchical B layer and the number of pictures of each B layer. Experiment results show that the complexity reduction of the proposed temporal prediction structure and motion estimation method over hierarchical B pictures prediction structure and TZ search method which are used in JMVC(Joint Multi-view Video Coding) reference model can be up to 45∼70% while maintaining similar video quality and bit rates.

• 한국멀티미디어학회논문지
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• 제15권9호
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• pp.1093-1101
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• 2012

다시점 비디오는 3차원 정보를 표현하기 위한 영상으로 하나의 3차원 장면을 여러 시점에서 다수의 카메라로 촬영한 동영상이다. 영상들 사이에 존재하는 시간적 상관성과 화면간 상관성을 이용하는 다시점 비디오 부호화는 카메라의 수에 비례하여 데이터의 양이 늘어나기 때문에 계산량을 줄일 수 있는 다시점 비디오 부호화 기술이 필요하다. 본 논문에서는 다시점 비디오의 부호화 성능을 향상시키기 위한 효율적인 예측구조를 제안한다. 제안한 예측 구조는 다시점 비디오의 부호화 효율을 높이기 위하여 부호화되는 현재 화면과 현재 화면이 참조하는 참조 화면들과의 평균 거리, B계층 최대 인덱스 그리고 각 Bi 계층의 화면 수를 고려하였다. 제안한 예측 구조의 성능을 참조 예측 구조의 성능과 비교하였을 때 영상 화질 면에 있어서 제안한 예측 구조가 Fraunhofer-HHI의 계층적 B화면 구조보다 약 0.07~0.13 (dB) 성능 향상을 보였다. 발생되는 평균 초당 비트량에 있어서 제안한 예측 구조가 Fraunhofer-HHI의 계층적 B화면 구조보다 최대 6.5(Kbps) 감소하였다.

• The Korean Journal of Ecology
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• 제23권6호
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• pp.435-438
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• 2000

Diameter distributions describe forest stand structure information. Prediction equations for percentiles of diameter distribution and parameter recovery procedures for the Weibull distribution function based on four percentile equations were applied to develop prediction system of even-aged slash pine stand structure development in terms of the number of stems per diameter class changes. Four percentiles of the cumulative diameter distribution were predicted as a function of stand characteristics. The predicted diameter distributions were tested against the observed diameter distributions using the Kolmogorov-Smirnov two sample test at the ${\alpha}$=0.05 level. Statistically, no significant differences were detected based on the data from 236 evaluation data sets. This stand level diameter distribution prediction system will be useful in slash pine stand structure modeling and in updating forest inventories for the long-term forest management planning.

• 한국정보처리학회논문지
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• 제5권10호
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• pp.2676-2685
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• 1998

본 논문에서는 파이프라인 프로세서의 분기 명령어 처리 성능 향상을 목적으로, BTB의 미스율을 줄이고 분기 예측의 정확도를 개선하기 위해 victim cache를 활용한 2-단계 BTB 구조를 제안한다. 2-단계 BTB는 기존의 BTB에 작은 크기의 victim BTB를 추가한 구조로, 적은 비용으로 BTB 미스율을 개선하고, 동적 예측(dynamic prediction)과 정적 예측 (static prediction)이 함께 사용되는 기존의 통합 분기 예측(Hybrid Branch Prediction) 구조의 예측 정확도를 높이도록 운영된다. 본 논문에서 제안된 2-단계 BTB에 의한 성능 개선을 4개 벤치마크 프로그램에 대한 trace-driven 시뮬레이션을 통해 검증한 결과, 기존의 BTB에 비해 2.5∼8.5%의 비용 증가로 BTB 미스율이 26.5% 개선되고, 기존의 gshare에 비해 64%의 비용 증가로 예측 정확도는 26.75% 개선되었다.

• 한국생물정보학회:학술대회논문집
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• 한국생물정보시스템생물학회 2005년도 BIOINFO 2005
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• pp.287-293
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• 2005

Predicting RNA secondary structure as accurately as possible is very important in functional analysis of RNA molecules. However, different prediction methods and related parameters including terminal GU pair of helices, minimum length of helices, and free energy systems often give different prediction results for the same RNA sequence. Then, which structure is more important than the others? i.e. which combinations of the methods and related parameters are the optimal? In order to investigate above problems, first, three prediction methods, namely, random stacking of helical regions (RS), helical regions distribution (HD), and Zuker's minimum free energy algorithm (ZMFE) were compared by taking 1139 tRNA sequences from Rfam database as the samples with different combinations of parameters. The optimal parameters are derived. Second, Zuker's dynamic programming method for prediction of RNA secondary structure was revised using the above optimal parameters and related software BJRNAFold was developed. Third, the effects of short-range interaction were studied. The results indicated that the prediction accuracy would be improved much if proper short-range factor were introduced. But the optimal short-range factor was difficult to determine. A user-adjustable parameter for short-range factor was introduced in BJRNAFold software.

• 한국생물정보학회:학술대회논문집
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• 한국생물정보시스템생물학회 2004년도 The 3rd Annual Conference for The Korean Society for Bioinformatics Association of Asian Societies for Bioinformatics 2004 Symposium
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• pp.250-261
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• 2004

A novel method for ab initio prediction of protein tertiary structures, PROFESY (PROFile Enumerating SYstem), is introduced. This method utilizes secondary structure prediction information and fragment assembly. The secondary structure prediction of proteins is performed with the PREDICT method which uses PSI-BLAST to generate profiles and a distance measure in the pattern space. In order to predict the tertiary structure of a protein sequence, we assemble fragments in the fragment library constructed as a byproduct of PREDICT. The tertiary structure is obtained by minimizing the potential energy using the conformational space annealing method which enables one to sample diverse low lying minima of the energy function. We apply PROFESY for prediction of some proteins with known structures, which shows good performances. We also participated in CASP5 and applied PROFESY to new fold targets for blind predictions. The results were quite promising, despite the fact that PROFESY was in its early stage of development. In particular, the PROFESY result is the best for the hardest target T0161.

• 한국생물물리학회:학술대회논문집
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• 한국생물물리학회 2003년도 정기총회 및 학술발표회
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• pp.65-65
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• 2003

After many genome projects, algorithms and software to process explosively growing biological information have been developed. To process huge amount of biological information, high performance computing equipments are essential. If we use the remote resources such as computing power, storages etc., through a Grid to share the resources in the Internet environment, we will be able to obtain great efficiency to process data at a low cost. Here we present the performance improvement of the protein secondary structure prediction (PSIPred) by using the Grid platform, distributing protein sequence data on the Grid where each computer node analyzes its own part of protein sequence data to speed up the structure prediction. On the Grid, genome scale secondary structure prediction for Mycoplasma genitalium, Escherichia coli, Helicobacter pylori, Saccharomyces cerevisiae and Caenorhabditis slogans were performed and analyzed by a statistical way to show the protein structural deviation and comparison between the genomes. Experimental results show that the Grid is a viable platform to speed up the protein structure prediction and from the predicted structures.

• 한국소음진동공학회논문집
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• 제24권9호
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• pp.695-705
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• 2014

In this paper, two types of techniques for the prediction of radiated sound pressure due to vibration of a structure are investigated. The prediction performance using wave-number sensing technique is compared to that of conventional prediction method, such as Rayleigh's integral method, for the prediction of far-field radiated sound pressure. For a coupled plate, wave-number components are predicted by the vibration response of plate and the prediction performance of far-field sound is verified. In addition, the applicability of distributed sensors that are not allowable to Rayleigh's integral method is considered and these can replace point sensors. Experimental implementation verified the prediction accuracy of far-field sound radiation by the wave-number sensing technique. Prediction results from the technique are as good as those of Rayleigh's integral method and with distributed sensors, more reduced computation time is expected. To predict the radiated sound by the efficient configuration of structural sensors, composed(synthesized) mode considering sound power contribution is determined and from this size and location of sensors are chosen. Four types of sensor configuration are suggested, simulated and compared.

• Journal of the Korean Society for Industrial and Applied Mathematics
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• 제15권3호
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• pp.191-199
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• 2011

In this paper, we adopt a position specific scoring matrix as an abstraction of amino acid type to derive two new statistical potentials for protein structure prediction, and investigated its effect on the quality of the potentials compared to that derived using residue specific amino acid identity. For stringent test of the potential quality, we carried out folding simulations of 91 residue A chain of protein 2gpi, and found unexpectedly that the abstract amino acid type improved the quality of the one-body type statistical potential, but not for the two-body type statistical potential which describes long range interactions. This observation could be effectively used when one develops more accurate potentials for structure prediction, which are usually involved in merging various one-body and many-body potentials.